[stdout]

starting vdj_asm_asm, mem = 0.01
available mem = 830.24 GB
/scratch/etanis/software/cellranger-6.1.2/lib/bin/cr_vdj martian assembly main /scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/VDJ_T_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk38-ucc6a7a72e6 /scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/VDJ_T_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk38-ucc6a7a72e6/files /scratch/etanis/ST-118/multi/dimitri-multi/journal/SC_MULTI_CS.SC_MULTI_CORE.MULTI_GEM_WELL_PROCESSOR.VDJ_T_GEM_WELL_PROCESSOR.SC_VDJ_CONTIG_ASSEMBLER.ASSEMBLE_VDJ.fork0.chnk38.ucc6a7a72e6
n50_n50_rpu = 2159

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1 = CGCTGGACATCGGGTC-1

using 12 reads

====================================================================================

graph has 8 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 1[10]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.3 = CGCTGGACATCTCGCT-1

using 38 reads

====================================================================================

graph has 52 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 6[2^4, 12, 16]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.14 = CGCTGGAGTAATCACC-1

using 56 reads

====================================================================================

graph has 120 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[3^2, 48]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.15 = CGCTGGAGTACCGAGA-1

using 24650 reads

====================================================================================

graph has 8301 edges initially, 160 edges after simplification

total ucounts = 855
nonsolo ucounts = 623[2^107, 3^70, 4^68, 5^58, 6^46, 7^41, 8^33, 9^24, 10^11, 11^17, 12^20, 13^21, 14^13, 15^10, 16^8, 17^12, 18^5, 19^6, 20^4, 21^4, 22^2, 23^2, 24^6, 26^2, 28^2, 30, 31^2, 32, 33^2, 34, 35, 36, 37, 40, 41, 42, 43, 52, 53, 57, 59, 60, 64, 65^2, 72, 145, 186, 1388, 2637, 2677, 3028, 3415, 5684]
surviving nonsolo ucounts = 8[145, 186, 1388, 2637, 2677, 3028, 3415, 5684]
ids = [103, 598, 732, 471, 247, 312, 90, 92]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.17 = CGCTGGAGTACTTGAC-1

using 294 reads

====================================================================================

graph has 233 edges initially, 10 edges after simplification

total ucounts = 13
nonsolo ucounts = 12[2^3, 5, 7^2, 18, 39, 50, 51, 52, 58]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.24 = CGCTGGAGTCATACTG-1

using 63 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[63]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.25 = CGCTGGAGTCCATGAT-1

using 3323 reads

====================================================================================

graph has 1052 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[3322]
surviving nonsolo ucounts = 1[3322]
ids = [0]

====================================================================================

UMI info for barcode CGCTGGAGTCCATGAT-1 contig 1 = AAGCCCTGAG...
umi AGACTGGCCT = 3340 reads: +406 validated

GOOD CONTIGS

TIG 1[bases=500]
0-42 ==> 267-309 on |630|TRBV5-1|5'UTR| [len=309] (mis=0)
42-385 ==> 0-343 on |631|TRBV5-1|L-REGION+V-REGION| [len=343] (mis=3)
400-448 ==> 0-48 on |537|TRBJ1-2|J-REGION| [len=48] (mis=0)
448-500 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
junction support: 1 umis using 211 reads
cdr3 = CASSSTGTGLANYGYTF at 369, score = 9 + 9
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 3272
start codons at 42, 324, 328, 406
confident = false
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.27 = CGCTGGAGTCCGACGT-1

using 154 reads

====================================================================================

graph has 128 edges initially, 4 edges after simplification

total ucounts = 6
nonsolo ucounts = 6[2, 4, 10, 26, 37, 75]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.32 = CGCTGGAGTCTCGTTC-1

using 148 reads

====================================================================================

graph has 68 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[5, 143]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.33 = CGCTGGAGTCTCTCTG-1

using 58 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 4[3, 5, 12, 35]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.36 = CGCTGGAGTCTTGATG-1

using 21 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[21]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.37 = CGCTGGAGTCTTTCAT-1

using 74 reads

====================================================================================

graph has 46 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[74]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.38 = CGCTGGAGTGACAAAT-1

using 1799 reads

====================================================================================

graph has 414 edges initially, 2 edges after simplification

total ucounts = 11
nonsolo ucounts = 5[2^2, 3, 13, 1773]
surviving nonsolo ucounts = 1[1773]
ids = [2]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.55 = CGCTGGATCAAGGCTT-1

using 46 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[46]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.60 = CGCTGGATCAGAGCTT-1

using 27 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 1[25]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.62 = CGCTGGATCATCACCC-1

using 30 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[30]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.63 = CGCTGGATCATGCAAC-1

using 51 reads

====================================================================================

graph has 74 edges initially, 2 edges after simplification

total ucounts = 14
nonsolo ucounts = 10[2^2, 3^3, 4, 5^2, 6, 14]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.64 = CGCTGGATCATGTGGT-1

using 31 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2, 7, 9, 11]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.71 = CGCTGGATCCTGCTTG-1

using 28 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[28]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.83 = CGCTGGATCTAACTCT-1

using 102 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[16, 85]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.88 = CGCTGGATCTCGCTTG-1

using 18 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[17]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.91 = CGCTGGATCTGAGGGA-1

using 24 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[24]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.95 = CGCTGGATCTGGCGTG-1

using 68 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[68]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.98 = CGCTGGATCTTAGCCC-1

using 280 reads

====================================================================================

graph has 188 edges initially, 6 edges after simplification

total ucounts = 13
nonsolo ucounts = 9[2, 4, 5^2, 16, 24, 56, 73, 91]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.99 = CGCTGGATCTTCTGGC-1

using 99 reads

====================================================================================

graph has 78 edges initially, 6 edges after simplification

total ucounts = 11
nonsolo ucounts = 6[2, 4^2, 19, 26, 39]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.100 = CGCTGGATCTTGCCGT-1

using 351 reads

====================================================================================

graph has 148 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[351]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.101 = CGCTGGATCTTGTCAT-1

using 59 reads

====================================================================================

graph has 40 edges initially, 4 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[25, 34]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.102 = CGCTTCAAGAAACGCC-1

using 70 reads

====================================================================================

graph has 66 edges initially, 4 edges after simplification

total ucounts = 10
nonsolo ucounts = 6[3^2, 5, 6, 16, 33]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.106 = CGCTTCAAGACTAAGT-1

using 49 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[49]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.108 = CGCTTCAAGATATGCA-1

using 79 reads

====================================================================================

graph has 139 edges initially, 2 edges after simplification

total ucounts = 17
nonsolo ucounts = 11[2, 4, 5^3, 6^3, 7, 11, 16]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.110 = CGCTTCAAGATGCCAG-1

using 228 reads

====================================================================================

graph has 176 edges initially, 10 edges after simplification

total ucounts = 22
nonsolo ucounts = 13[2^2, 3, 4, 6, 9^2, 13, 14, 17, 22, 45, 73]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.111 = CGCTTCAAGATGGGTC-1

using 164 reads

====================================================================================

graph has 170 edges initially, 4 edges after simplification

total ucounts = 16
nonsolo ucounts = 14[2^2, 5, 6^2, 7^3, 8, 9, 10, 14, 17, 62]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.118 = CGCTTCAAGCTGAACG-1

using 310 reads

====================================================================================

graph has 258 edges initially, 10 edges after simplification

total ucounts = 19
nonsolo ucounts = 16[4^2, 5, 6^2, 7^2, 8, 11, 16, 17, 29, 33, 35, 50, 69]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.119 = CGCTTCAAGCTGCGAA-1

using 99 reads

====================================================================================

graph has 46 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 3[5, 6, 85]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.120 = CGCTTCAAGGAGCGAG-1

using 89 reads

====================================================================================

graph has 48 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[89]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.121 = CGCTTCAAGGAGCGTT-1

using 19 reads

====================================================================================

graph has 12 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[19]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.122 = CGCTTCAAGGATATAC-1

using 50 reads

====================================================================================

graph has 74 edges initially, 2 edges after simplification

total ucounts = 13
nonsolo ucounts = 5[2, 7, 9, 10, 14]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.123 = CGCTTCAAGGCAAAGA-1

using 87 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[87]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.124 = CGCTTCAAGGCATGGT-1

using 77 reads

====================================================================================

graph has 58 edges initially, 4 edges after simplification

total ucounts = 10
nonsolo ucounts = 9[2, 3^2, 5, 8, 9, 14^2, 18]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.125 = CGCTTCAAGGCCCTCA-1

using 63 reads

====================================================================================

graph has 70 edges initially, 4 edges after simplification

total ucounts = 8
nonsolo ucounts = 6[2, 3^2, 5, 21, 27]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.126 = CGCTTCAAGGCTACGA-1

using 110 reads

====================================================================================

graph has 58 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[110]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.127 = CGCTTCAAGGCTAGAC-1

using 92 reads

====================================================================================

graph has 109 edges initially, 4 edges after simplification

total ucounts = 17
nonsolo ucounts = 13[2^5, 4^2, 6, 9^2, 11, 15, 20]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.128 = CGCTTCAAGGGCTTGA-1

using 74 reads

====================================================================================

graph has 26 edges initially, 4 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[36, 38]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.129 = CGCTTCAAGGGTCGAT-1

using 3119 reads

====================================================================================

graph has 722 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 6[2, 3, 8, 13, 15, 3075]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.130 = CGCTTCAAGGGTTTCT-1

using 127 reads

====================================================================================

graph has 158 edges initially, 4 edges after simplification

total ucounts = 15
nonsolo ucounts = 10[2^2, 4, 5, 8, 11, 13, 19, 24, 34]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.133 = CGCTTCAAGTACGCGA-1

using 75 reads

====================================================================================

graph has 64 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 5[2^2, 4, 5, 59]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.134 = CGCTTCAAGTAGCGGT-1

using 1211 reads

====================================================================================

graph has 1498 edges initially, 42 edges after simplification

total ucounts = 190
nonsolo ucounts = 134[2^22, 3^19, 4^15, 5^9, 6^8, 7^11, 8^8, 9^11, 10^6, 11, 12^3, 13^3, 14^2, 15, 16, 17^2, 20, 22^3, 23, 29^2, 30, 36, 46, 50, 93]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.136 = CGCTTCAAGTCAAGCG-1

using 83 reads

====================================================================================

graph has 62 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[12, 23, 46]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.137 = CGCTTCAAGTCATGCT-1

using 748 reads

====================================================================================

graph has 306 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[2^2, 3, 9, 728]
surviving nonsolo ucounts = 1[728]
ids = [7]

====================================================================================

REJECT CONTIGS

TIG 1[bases=611]
0-176 ==> 0-176 on |496|TRAV3|5'UTR| [len=176] (mis=1)
176-519 ==> 0-343 on |497|TRAV3|L-REGION+V-REGION| [len=343] (mis=1)
524-569 ==> 10-55 on |406|TRAJ21|J-REGION| [len=55] (mis=0)
569-611 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [7]
of which 1 are surviving nonsolos
reads assigned: 713
start codons at 176, 197, 206, 298, 339, 414, 557
confident = false
frameshifted full length stopped transcript of length 611
did not find CDR3
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.146 = CGCTTCACAAACCTAC-1

using 51 reads

====================================================================================

graph has 60 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[51]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.148 = CGCTTCACAAACGTGG-1

using 44 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 2[12, 29]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.150 = CGCTTCACAAAGTCAA-1

using 78 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[78]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.154 = CGCTTCACAAGACACG-1

using 1314 reads

====================================================================================

graph has 512 edges initially, 8 edges after simplification

total ucounts = 12
nonsolo ucounts = 6[7^2, 11, 36, 48, 1199]
surviving nonsolo ucounts = 1[1199]
ids = [4]

====================================================================================

UMI info for barcode CGCTTCACAAGACACG-1 contig 1 = AGACCAGAAT...
umi CACGCTTTGT = 1211 reads: +400 validated

GOOD CONTIGS

TIG 1[bases=499]
0-47 ==> 0-47 on |616|TRBV3-1|5'UTR| [len=47] (mis=0)
47-391 ==> 0-344 on |617|TRBV3-1|L-REGION+V-REGION| [len=344] (mis=3)
396-447 ==> 0-51 on |544|TRBJ2-2|J-REGION| [len=51] (mis=0)
447-499 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 1 umis using 89 reads
cdr3 = CASSLGTPNTGELFF at 374, score = 9 + 9
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 1181
start codons at 47, 146, 169, 189, 197, 239, 273
confident = false
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.156 = CGCTTCACAAGAGGCT-1

using 101 reads

====================================================================================

graph has 84 edges initially, 4 edges after simplification

total ucounts = 12
nonsolo ucounts = 6[2, 3, 7, 14, 15, 54]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.157 = CGCTTCACAAGCCGTC-1

using 101 reads

====================================================================================

graph has 60 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 5[2, 3, 5, 7, 82]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.158 = CGCTTCACAAGCTGAG-1

using 65 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[65]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.161 = CGCTTCACAATCGGTT-1

using 132 reads

====================================================================================

graph has 118 edges initially, 6 edges after simplification

total ucounts = 20
nonsolo ucounts = 16[2^4, 3, 4^3, 5, 7^3, 8, 10^2, 51]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.167 = CGCTTCACACACCGCA-1

using 31 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[2, 3, 24]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.176 = CGCTTCACACGAGAGT-1

using 6504 reads

====================================================================================

graph has 2814 edges initially, 60 edges after simplification

total ucounts = 369
nonsolo ucounts = 258[2^46, 3^27, 4^27, 5^18, 6^20, 7^8, 8^14, 9^12, 10^9, 11^7, 12^9, 13^11, 14^5, 15^8, 16^4, 17^3, 18, 19^2, 20^4, 22^4, 25^2, 30^3, 32, 33, 35, 37, 38^2, 42, 46, 52, 57, 61, 287, 1561, 2220]
surviving nonsolo ucounts = 3[287, 1561, 2220]
ids = [294, 297, 199]

====================================================================================

REJECT CONTIGS

TIG 1[bases=530]
5-141 ==> 138-274 on segment before TRAV26-1 exon 2 [len=431] (mis=0)
137-428 ==> 37-328 on |490|TRAV26-1|L-REGION+V-REGION| [len=328] (mis=0)
431-488 ==> 0-57 on |416|TRAJ30|J-REGION| [len=57] (mis=2)
488-530 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
cdr3 = CIVRVATDRDDKIIF at 412, score = 8 + 8
umis assigned: [297]
of which 1 are surviving nonsolos
reads assigned: 1546
start codons at 83, 107, 152, 178, 239, 245, 296, 311, 320, 325, 440
confident = false
VJ delta = 22
not full
not full
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.177 = CGCTTCACACGGTAAG-1

using 76 reads

====================================================================================

graph has 68 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 6[3, 4, 5, 10, 24, 29]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.181 = CGCTTCACAGATAATG-1

using 64 reads

====================================================================================

graph has 52 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[2^2, 3, 9, 44]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.183 = CGCTTCACAGCATACT-1

using 37 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[37]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.186 = CGCTTCACAGCTGTGC-1

using 107 reads

====================================================================================

graph has 90 edges initially, 4 edges after simplification

total ucounts = 10
nonsolo ucounts = 9[4^4, 5, 6, 7, 16, 56]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.187 = CGCTTCACAGCTTAAC-1

using 263 reads

====================================================================================

graph has 208 edges initially, 10 edges after simplification

total ucounts = 20
nonsolo ucounts = 16[2^2, 4, 5^3, 6, 7^2, 17, 20^2, 22, 39, 45, 53]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.188 = CGCTTCACAGGCTCAC-1

using 50 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 6[2, 3, 4, 8, 9, 22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.189 = CGCTTCACAGGGTACA-1

using 50 reads

====================================================================================

graph has 72 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 6[2^2, 6, 8, 9, 19]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.190 = CGCTTCACAGGTCGTC-1

using 56 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[56]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.195 = CGCTTCACAGTTAACC-1

using 110 reads

====================================================================================

graph has 70 edges initially, 6 edges after simplification

total ucounts = 15
nonsolo ucounts = 8[2, 6, 7, 9, 12^2, 19, 36]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.196 = CGCTTCACAGTTTACG-1

using 31 reads

====================================================================================

graph has 12 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[30]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.198 = CGCTTCACATCATCCC-1

using 27 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[26]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.203 = CGCTTCACATGCGCAC-1

using 33 reads

====================================================================================

graph has 48 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 5[2, 3^2, 5, 15]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.209 = CGCTTCACATTCTTAC-1

using 52 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[52]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.217 = CGCTTCAGTAGGACAC-1

using 83 reads

====================================================================================

graph has 102 edges initially, 4 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[8^2, 9, 22, 32]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.218 = CGCTTCAGTAGGCTGA-1

using 66 reads

====================================================================================

graph has 48 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 4[2, 3, 22, 35]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.219 = CGCTTCAGTATAATGG-1

using 93 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[93]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.221 = CGCTTCAGTATTAGCC-1

using 72 reads

====================================================================================

graph has 56 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[72]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.222 = CGCTTCAGTCAAACTC-1

using 89 reads

====================================================================================

graph has 92 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[88]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.226 = CGCTTCAGTCCGACGT-1

using 357 reads

====================================================================================

graph has 138 edges initially, 4 edges after simplification

total ucounts = 12
nonsolo ucounts = 7[5^2, 9, 10^2, 29, 284]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.227 = CGCTTCAGTCCGTCAG-1

using 46 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[46]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.232 = CGCTTCAGTGAGTGAC-1

using 148 reads

====================================================================================

graph has 130 edges initially, 6 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[148]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.235 = CGCTTCAGTGTGACCC-1

using 82 reads

====================================================================================

graph has 72 edges initially, 4 edges after simplification

total ucounts = 5
nonsolo ucounts = 4[3, 8, 34, 36]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.239 = CGCTTCAGTTACGCGC-1

using 70 reads

====================================================================================

graph has 32 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[70]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.241 = CGCTTCAGTTATGTGC-1

using 30 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[30]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.242 = CGCTTCAGTTCCAACA-1

using 1122 reads

====================================================================================

graph has 446 edges initially, 4 edges after simplification

total ucounts = 8
nonsolo ucounts = 6[2, 7, 8, 9, 13, 1081]
surviving nonsolo ucounts = 1[1081]
ids = [5]

====================================================================================

REJECT CONTIGS

TIG 1[bases=552]
0-128 ==> 0-128 on |523|TRAV8-4|5'UTR| [len=128] (mis=0)
128-453 ==> 0-325 on |524|TRAV8-4|L-REGION+V-REGION| [len=341] (mis=0)
450-510 ==> 0-60 on |731|TRAJ15|J-REGION| [len=60] (mis=3)
510-552 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [5]
of which 1 are surviving nonsolos
reads assigned: 1037
start codons at 128, 291, 431
confident = false
full length transcript of length 552
did not find CDR3
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.243 = CGCTTCAGTTCCACAA-1

using 57 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[57]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.244 = CGCTTCAGTTCCATGA-1

using 77 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[77]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.249 = CGCTTCAGTTGCTCCT-1

using 65 reads

====================================================================================

graph has 70 edges initially, 4 edges after simplification

total ucounts = 10
nonsolo ucounts = 4[3, 5^2, 46]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.254 = CGCTTCATCACAACGT-1

using 241 reads

====================================================================================

graph has 186 edges initially, 8 edges after simplification

total ucounts = 25
nonsolo ucounts = 15[2^3, 3, 4, 5^2, 6, 7, 8, 23, 25, 31, 43, 65]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.256 = CGCTTCATCACCAGGC-1

using 98 reads

====================================================================================

graph has 120 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 8[2, 3, 4, 9, 12, 15, 25, 27]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.259 = CGCTTCATCACTGGGC-1

using 61 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[61]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.261 = CGCTTCATCACTTCAT-1

using 38 reads

====================================================================================

graph has 68 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[2, 36]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.264 = CGCTTCATCAGTGCAT-1

using 168 reads

====================================================================================

graph has 168 edges initially, 4 edges after simplification

total ucounts = 19
nonsolo ucounts = 15[2^3, 4, 6^2, 7, 8^2, 11, 16, 20, 21, 22, 29]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.266 = CGCTTCATCATCGCTC-1

using 55 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[55]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.268 = CGCTTCATCATGCTCC-1

using 25 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[25]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.272 = CGCTTCATCCACTCCA-1

using 2059 reads

====================================================================================

graph has 746 edges initially, 2 edges after simplification

total ucounts = 18
nonsolo ucounts = 14[2^6, 3, 5^2, 9^2, 10, 14, 1988]
surviving nonsolo ucounts = 1[1988]
ids = [1]

====================================================================================

UMI info for barcode CGCTTCATCCACTCCA-1 contig 1 = TGGGGGTTTT...
umi AATTCGTATA = 1995 reads: +397 validated

GOOD CONTIGS

TIG 1[bases=465]
26-363 ==> 0-337 on |500|TRAV34|L-REGION+V-REGION| [len=337] (mis=3)
360-423 ==> 0-63 on |431|TRAJ44|J-REGION| [len=63] (mis=3)
423-465 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 1 umis using 106 reads
cdr3 = CGASHTGTASKLTF at 350, score = 7 + 9
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 1956
start codons at 26, 174, 201, 224, 227, 258, 282, 333
confident = false
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.274 = CGCTTCATCCATGCTC-1

using 120 reads

====================================================================================

graph has 32 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[120]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.277 = CGCTTCATCCTAGAAC-1

using 181 reads

====================================================================================

graph has 152 edges initially, 8 edges after simplification

total ucounts = 17
nonsolo ucounts = 16[2^3, 3, 4^2, 5, 6^2, 7, 8, 14, 16, 20, 23, 58]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.279 = CGCTTCATCGAACTGT-1

using 78 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[78]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.281 = CGCTTCATCGAATGGG-1

using 31 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[31]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.288 = CGCTTCATCGGGAGTA-1

using 167 reads

====================================================================================

graph has 224 edges initially, 4 edges after simplification

total ucounts = 10
nonsolo ucounts = 7[6, 8, 9, 10, 16, 26, 89]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.291 = CGCTTCATCGTCGTTC-1

using 62 reads

====================================================================================

graph has 76 edges initially, 2 edges after simplification

total ucounts = 13
nonsolo ucounts = 10[2^3, 3, 5^2, 6, 7, 13, 14]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.293 = CGCTTCATCTAACTTC-1

using 53 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[53]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.294 = CGCTTCATCTAGAGTC-1

using 59 reads

====================================================================================

graph has 54 edges initially, 6 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[59]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.297 = CGCTTCATCTCCTATA-1

using 39 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[38]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.298 = CGCTTCATCTCGATGA-1

using 114 reads

====================================================================================

graph has 106 edges initially, 4 edges after simplification

total ucounts = 14
nonsolo ucounts = 10[4^2, 5^2, 7^2, 9, 15, 23, 31]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.300 = CGCTTCATCTCTAAGG-1

using 56 reads

====================================================================================

graph has 97 edges initially, 2 edges after simplification

total ucounts = 12
nonsolo ucounts = 6[2^2, 5, 9, 10, 22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.301 = CGCTTCATCTCTGAGA-1

using 345 reads

====================================================================================

graph has 302 edges initially, 16 edges after simplification

total ucounts = 23
nonsolo ucounts = 20[2, 3^2, 4, 5^3, 8, 9^2, 10, 12, 13^2, 18, 21, 26, 38, 59, 79]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.303 = CGCTTCATCTGAGTGT-1

using 95 reads

====================================================================================

graph has 66 edges initially, 2 edges after simplification

total ucounts = 12
nonsolo ucounts = 7[2, 4^3, 5, 9, 62]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.304 = CGCTTCATCTGCTGTC-1

using 68 reads

====================================================================================

graph has 70 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 8[2^2, 3^2, 12, 14, 15^2]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.307 = CGCTTCATCTGTCTCG-1

using 104 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[104]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.308 = CGCTTCATCTTATCTG-1

using 73 reads

====================================================================================

graph has 50 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[73]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.309 = CGCTTCATCTTCAACT-1

using 61 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[61]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.311 = CGCTTCATCTTCGGTC-1

using 53 reads

====================================================================================

graph has 68 edges initially, 2 edges after simplification

total ucounts = 12
nonsolo ucounts = 7[2^4, 9, 12, 19]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.317 = CGCTTCATCTTTCCTC-1

using 26 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[26]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.318 = CGGACACAGAAACCTA-1

using 81 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[81]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.326 = CGGACACAGATCACGG-1

using 43 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[43]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.332 = CGGACACAGCCACGCT-1

using 81 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[81]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.340 = CGGACACAGCTTCGCG-1

using 39 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[15, 23]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.343 = CGGACACAGGATGGTC-1

using 39166 reads

====================================================================================

graph has 12434 edges initially, 126 edges after simplification

total ucounts = 613
nonsolo ucounts = 428[2^74, 3^51, 4^42, 5^25, 6^25, 7^25, 8^21, 9^13, 10^12, 11^16, 12^14, 13^11, 14^11, 15^9, 16^8, 17^7, 18^6, 19^4, 20^3, 21^2, 22^2, 23, 24, 25, 26, 27^2, 28, 33, 34^3, 35, 39, 47^2, 48^2, 54, 57, 58, 60, 62, 67, 68, 82, 91, 95, 139, 590, 658, 691, 1065, 1216, 1276, 1312, 1410, 1456, 1498, 1549, 1620, 1781, 1838, 1952, 2012, 3948, 4101, 4918]
surviving nonsolo ucounts = 19[590, 658, 691, 1065, 1216, 1276, 1312, 1410, 1456, 1498, 1549, 1620, 1781, 1838, 1952, 2012, 3948, 4101, 4918]
ids = [368, 46, 515, 278, 225, 158, 142, 363, 574, 171, ...]

====================================================================================

UMI info for barcode CGGACACAGGATGGTC-1 contig 1 = GGAGGCAGTG...
umi AATTATTCCC = 1791 reads: +391 validated
umi AATTTCCGGA = 656 reads: +391 validated
umi ACCCAGGACA = 2016 reads: +391 validated
umi ATCAGAGGGC = 1321 reads: +391 validated
umi ATTACTTGCA = 1266 reads: +391 validated
umi CAATCGGCCC = 1518 reads: +391 validated
umi CCGAGTGGAT = 1213 reads: +391 validated
umi CGTCATCTAA = 1074 reads: +391 validated
umi GCGAATGGAT = 1424 reads: +391 validated
umi GCGCTCCAGT = 589 reads: +391 validated
umi GTTATTTCGG = 1840 reads: +391 validated
umi TATAGAACAA = 1954 reads: +391 validated
umi TATCTGGCCC = 1630 reads: +391 validated
umi TGACTACCCG = 703 reads: +391 validated
umi TGCAAGCAGT = 1546 reads: +391 validated
umi TTGGACTCAA = 1460 reads: +391 validated

GOOD CONTIGS

TIG 1[bases=498]
0-55 ==> 23-78 on |597|TRBV20-1|5'UTR| [len=78] (mis=0)
55-390 ==> 0-335 on |598|TRBV20-1|L-REGION+V-REGION| [len=335] (mis=2)
399-446 ==> 0-47 on |550|TRBJ2-7|J-REGION| [len=47] (mis=2)
446-498 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 16 umis using 1260 reads
cdr3 = CSASAQGVTYEQYF at 376, score = 7 + 8
umis assigned: [41, 46, 64, 142, 158, 171, 225, 278, 363, 368] and 6 others
of which 16 are surviving nonsolos
reads assigned: 21553
start codons at 55, 193, 229, 235, 248, 308
confident = true

REJECT CONTIGS

TIG 1[bases=385]
0-50 ==> 0-50 on |678|TRBV7-3|5'UTR| [len=50] (mis=3)
50-172 ==> 0-122 on |679|TRBV7-3|L-REGION+V-REGION| [len=347] (mis=0)
169-260 ==> 256-347 on |679|TRBV7-3|L-REGION+V-REGION| [len=347] (mis=4) [SHIFT!]
283-333 ==> 0-50 on |543|TRBJ2-1|J-REGION| [len=50] (mis=5)
333-385 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [201, 525, 553]
of which 3 are surviving nonsolos
reads assigned: 12763
start codons at 50, 159, 291
confident = false
did not find CDR3
now this is a cell
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.349 = CGGACACAGGTCGGAT-1

using 91 reads

====================================================================================

graph has 60 edges initially, 2 edges after simplification

total ucounts = 18
nonsolo ucounts = 8[2^2, 3^2, 6, 10, 11, 44]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.350 = CGGACACAGGTGCTTT-1

using 77 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[77]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.352 = CGGACACAGGTGTGGT-1

using 90 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[90]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.362 = CGGACACAGTCCATAC-1

using 594 reads

====================================================================================

graph has 306 edges initially, 10 edges after simplification

total ucounts = 15
nonsolo ucounts = 14[2, 3^2, 10, 11, 27^3, 30, 65, 73, 89, 105, 121]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.370 = CGGACACCAAAGGTGC-1

using 41 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[41]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.373 = CGGACACCAAGACGTG-1

using 62 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[62]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.375 = CGGACACCAATAGCGG-1

using 285 reads

====================================================================================

graph has 132 edges initially, 6 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[12, 18, 55, 68, 128]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.378 = CGGACACCACAGAGGT-1

using 47 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[47]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.381 = CGGACACCACCGATAT-1

using 3199 reads

====================================================================================

graph has 2460 edges initially, 66 edges after simplification

total ucounts = 360
nonsolo ucounts = 256[2^41, 3^39, 4^24, 5^17, 6^10, 7^16, 8^12, 9^11, 10^8, 11^10, 12^5, 13^4, 14, 15^6, 16^2, 17^3, 18^3, 19, 20, 21^6, 22^5, 23^2, 24, 25^2, 28^3, 30^3, 31^2, 32, 34, 35, 38^2, 39^2, 40^2, 45, 51, 70, 74, 82, 95, 116, 137, 169]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.384 = CGGACACCACTCGACG-1

using 74 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 2[4, 67]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.387 = CGGACACCAGACGCAA-1

using 91 reads

====================================================================================

graph has 62 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[8, 9, 74]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.388 = CGGACACCAGACTCGC-1

using 60 reads

====================================================================================

graph has 52 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[2, 4, 54]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.390 = CGGACACCAGATGGGT-1

using 116 reads

====================================================================================

graph has 80 edges initially, 4 edges after simplification

total ucounts = 6
nonsolo ucounts = 6[2, 3^2, 14, 42, 52]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.398 = CGGACACCAGTTCCCT-1

using 80000 reads

====================================================================================

graph has 17155 edges initially, 120 edges after simplification

total ucounts = 505
nonsolo ucounts = 334[2^57, 3^40, 4^32, 5^25, 6^10, 7^12, 8^12, 9^12, 10^3, 11^7, 12^5, 13^6, 14^4, 15^2, 16^2, 17, 18^6, 19, 20^4, 21^3, 22^3, 23^4, 24^2, 25, 26^2, 28^4, 29, 31, 32^2, 33, 34, 36, 37, 38^4, 39^2, 40, 41, 42, 47^2, 49, 50, 51, 56^2, 60, 61, 64, 68^2, 75, 80, 83, 86, 91, 108^2, 123, 388, 570, 614, 695, 830, 1093, 1223, 1382, 1411, 1578, 1613, 1715, 1776, 1780, 1782, 1785, 1835, 1847, 1880, 1968, 2008, 2038, 2048, 2078, 2080, 2083, 2090, 2133, 2241, 2330, 2446, 2447, 2473, 2520, 4999, 5796, 6326]
surviving nonsolo ucounts = 35[614, 695, 830, 1093, 1223, 1382, 1411, 1578, 1613, 1715, 1776, 1780, 1782, 1785, 1835, 1847, 1880, 1968, 2008, 2038, 2048, 2078, 2080, 2083, 2090, 2133, 2241, 2330, 2446, 2447, 2473, 2520, 4999, 5796, 6326]
ids = [272, 235, 165, 65, 121, 410, 176, 266, 31, 45, ...]

====================================================================================

UMI info for barcode CGGACACCAGTTCCCT-1 contig 1 = AGAGGCCCCA...
umi AAAATGACTC = 1786 reads: +397 validated
umi AATTTACCCT = 2470 reads: +397 validated
umi ACACTCCACT = 1617 reads: +397 validated
umi ACCTGACTCC = 1722 reads: +397 validated
umi AGGAAACGCC = 1100 reads: +397 validated
umi AGGCAGCCCG = 1896 reads: +397 validated
umi CACGATAGAG = 1208 reads: +397 validated
umi CAGTTTCCAT = 2090 reads: +397 validated
umi CCATATTTCC = 1969 reads: +397 validated
umi CCGCCCTGCT = 840 reads: +397 validated
umi CCTCAATTCA = 1419 reads: +397 validated
umi CGTGGGTCTG = 2091 reads: +397 validated
umi CTGCAAGGGT = 694 reads: +397 validated
umi GAGGATCATA = 1582 reads: +397 validated
umi GATATCCGGG = 2134 reads: +397 validated
umi GATCGATTGC = 612 reads: +397 validated
umi GATGGTTAAT = 2089 reads: +397 validated
umi GGGGTGTGGC = 2466 reads: +397 validated
umi GGTAGATCAC = 2447 reads: +397 validated
umi GGTGGTAGTA = 2092 reads: +397 validated
umi GTACATGTCC = 2051 reads: +397 validated
umi TACAGGCTCC = 2346 reads: +397 validated
umi TACCATCCGA = 1790 reads: +397 validated
umi TACTTCCCAC = 1862 reads: +397 validated
umi TAGCGATGTA = 1845 reads: +397 validated
umi TCCGTTTCGG = 1403 reads: +397 validated
umi TCCTCCGGGC = 1785 reads: +397 validated
umi TCGATGAATT = 2037 reads: +397 validated
umi TGACATGTCA = 4891 reads: -360 +1 -1XX +2 -1XX +6 -3XX +4 -1XX +1 -2XX +7 -1XX +2 -1XX +2 -1XX +1 invalidated
umi TGTTAATTCC = 2223 reads: +397 validated
umi TTAGTACCAC = 1774 reads: +397 validated
umi TTCAGTCAGT = 4446 reads: -360X +1 -1XX +2 -2XX +2 -1XX +2 -1XX +1 -2XX +2 -2XX +1 -2XX +4 -2XX +1 -1XX +2 -1XX +4 invalidated

UMI info for barcode CGGACACCAGTTCCCT-1 contig 2 = GGGAAATCTG...
umi AGTTGTTCTT = 2005 reads: +385 validated
umi CTCCCGGCTG = 2548 reads: +385 validated

GOOD CONTIGS

TIG 1[bases=478]
0-29 ==> 0-29 on |622|TRBV4-1|5'UTR| [len=29] (mis=0)
29-373 ==> 0-344 on |623|TRBV4-1|L-REGION+V-REGION| [len=344] (mis=0)
375-426 ==> 0-51 on |544|TRBJ2-2|J-REGION| [len=51] (mis=5)
426-478 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 30 umis using 3898 reads
cdr3 = CASSQEGGTGELFF at 356, score = 10 + 9
umis assigned: [1, 21, 31, 45, 65, 67, 121, 132, 148, 165] and 22 others
of which 32 are surviving nonsolos
reads assigned: 61722
start codons at 29, 122, 128, 151, 164, 179, 221, 237, 255, 286
confident = true

TIG 2[bases=467]
40-371 ==> 0-331 on |508|TRAV39|L-REGION+V-REGION| [len=331] (mis=3)
364-425 ==> 0-61 on |427|TRAJ40|J-REGION| [len=61] (mis=5)
425-467 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 2 umis using 249 reads
cdr3 = CAVLSGTYKYIF at 358, score = 6 + 8
umis assigned: [75, 222]
of which 2 are surviving nonsolos
reads assigned: 4476
start codons at 40, 58, 130, 248, 277, 335
confident = true

REJECT CONTIGS

TIG 1[bases=388]
5-283 ==> 1573-1851 on segment before TRAJ39 exon 1 [len=1851] (mis=0)
283-346 ==> 0-63 on |425|TRAJ39|J-REGION| [len=63] (mis=0)
346-388 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [63]
of which 1 are surviving nonsolos
reads assigned: 4932
start codons at 84, 292, 303, 333
confident = false
did not find CDR3
now this is a cell
paired!

GCTGCCGTGCATGACCTCTCTGCCACCTACTTCTGTGCCGTGCTCTCAGGAACCTACAAATACATCTTTGGAACAGGCACCAGGCTGAAGGTTTTAGCAA <==> CTGCAGCCAGAAGACTCAGCCCTGTATCTCTGCGCCAGCAGCCAAGAGGGCGGAACCGGGGAGCTGTTTTTTGGAGAAGGCTCTAGGCTGACCGTACTGG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.399 = CGGACACCATCGGTTA-1

using 126 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[126]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.400 = CGGACACCATCTATGG-1

using 58 reads

====================================================================================

graph has 50 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[58]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.401 = CGGACACCATGCCCGA-1

using 284 reads

====================================================================================

graph has 176 edges initially, 10 edges after simplification

total ucounts = 9
nonsolo ucounts = 8[2, 18, 20, 22, 47, 51, 57, 66]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.404 = CGGACACGTAGGACAC-1

using 49 reads

====================================================================================

graph has 32 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[49]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.405 = CGGACACGTCCCGACA-1

using 86 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[86]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.407 = CGGACACGTCCTGCTT-1

using 26 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[26]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.414 = CGGACACGTGGTACAG-1

using 48 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[48]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.417 = CGGACACGTTCACGGC-1

using 66 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 1[63]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.421 = CGGACACGTTTAAGCC-1

using 87 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[87]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.423 = CGGACACTCAACACAC-1

using 88 reads

====================================================================================

graph has 32 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[88]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.430 = CGGACACTCAGCTGGC-1

using 33 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[33]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.434 = CGGACACTCATCACCC-1

using 121 reads

====================================================================================

graph has 36 edges initially, 4 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[34, 87]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.437 = CGGACACTCATTGCCC-1

using 31 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[31]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.440 = CGGACACTCCAGATCA-1

using 73 reads

====================================================================================

graph has 66 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[73]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.444 = CGGACACTCCCTGACT-1

using 47 reads

====================================================================================

graph has 68 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[47]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.451 = CGGACACTCCTAGTGA-1

using 9732 reads

====================================================================================

graph has 1992 edges initially, 4 edges after simplification

total ucounts = 9
nonsolo ucounts = 2[35, 9690]
surviving nonsolo ucounts = 1[9690]
ids = [4]

====================================================================================

REJECT CONTIGS

TIG 1[bases=316]
5-62 ==> 47-104 on segment before TRBJ2-3 exon 1 [len=104] (mis=0)
62-111 ==> 0-49 on |546|TRBJ2-3|J-REGION| [len=49] (mis=0)
111-213 ==> 0-102 on segment before TRBJ2-4 exon 1 [len=102] (mis=0)
264-316 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=1)
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 9547
start codons at 
confident = false
did not find CDR3
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.455 = CGGACACTCGCGATCG-1

using 35 reads

====================================================================================

graph has 40 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2, 3, 5, 23]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.460 = CGGACACTCGGCGCAT-1

using 13651 reads

====================================================================================

graph has 5345 edges initially, 76 edges after simplification

total ucounts = 406
nonsolo ucounts = 274[2^49, 3^46, 4^29, 5^24, 6^26, 7^16, 8^6, 9^11, 10^5, 11^6, 12^5, 13^3, 14^2, 15^3, 16^4, 17, 18^2, 19^2, 20^2, 21, 23, 24, 25^3, 30, 31, 38, 40^2, 43, 45, 46, 47, 52, 58, 60, 63, 64, 65, 66, 69, 76, 92, 129, 272, 282, 832, 880, 1156, 7430]
surviving nonsolo ucounts = 6[272, 282, 832, 880, 1156, 7430]
ids = [158, 56, 288, 24, 199, 389]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.470 = CGGACACTCTATGTGG-1

using 72 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[72]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.471 = CGGACACTCTCATTCA-1

using 44 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 5[2^2, 3, 4, 33]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.473 = CGGACACTCTGATTCT-1

using 83 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[83]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.474 = CGGACACTCTGCAAGT-1

using 19839 reads

====================================================================================

graph has 6079 edges initially, 72 edges after simplification

total ucounts = 255
nonsolo ucounts = 173[2^36, 3^24, 4^11, 5^16, 6^9, 7^7, 8^6, 9^2, 10^7, 11^7, 12^2, 13^4, 14^5, 15^3, 16^5, 17, 18^2, 19^2, 24, 25^3, 27, 28^2, 31, 35, 36, 37, 42, 43, 72, 274, 337, 862, 1059, 1399, 1527, 1565, 1625, 2871, 6814]
surviving nonsolo ucounts = 10[274, 337, 862, 1059, 1399, 1527, 1565, 1625, 2871, 6814]
ids = [132, 71, 117, 234, 76, 188, 12, 66, 118, 216]

====================================================================================

UMI info for barcode CGGACACTCTGCAAGT-1 contig 1 = ATCCTGCCCT...
umi CACTTACCTA = 1636 reads: -42 +361 non-validated
umi CGTCCTCGCG = 2873 reads: +403 validated
umi TAGTACATCA = 1503 reads: +403 validated

UMI info for barcode CGGACACTCTGCAAGT-1 contig 2 = CTGGAAGACC...
umi ACACAAAACT = 1560 reads: +421 validated
umi CATCGGTTAA = 1393 reads: +421 validated
umi CGTCCATTGC = 811 reads: +51 -3XX +367 invalidated
umi TTACACCGTC = 1044 reads: +421 validated

GOOD CONTIGS

TIG 1[bases=474]
0-19 ==> 31-50 on |678|TRBV7-3|5'UTR| [len=50] (mis=0)
19-366 ==> 0-347 on |679|TRBV7-3|L-REGION+V-REGION| [len=347] (mis=2)
380-422 ==> 8-50 on |547|TRBJ2-4|J-REGION| [len=50] (mis=0)
422-474 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 3 umis using 444 reads
cdr3 = CASSLLGGIGDIQYF at 349, score = 8 + 8
umis assigned: [66, 118, 188]
of which 3 are surviving nonsolos
reads assigned: 5914
start codons at 19, 128, 242
confident = true

TIG 2[bases=508]
0-45 ==> 0-45 on |484|TRAV23/DV6|5'UTR| [len=45] (mis=0)
45-409 ==> 0-364 on |485|TRAV23/DV6|L-REGION+V-REGION| [len=364] (mis=6)
416-466 ==> 7-57 on |405|TRAJ20|J-REGION| [len=57] (mis=0)
466-508 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 4 umis using 216 reads
cdr3 = CAASFRGDYKLSF at 396, score = 9 + 8
umis assigned: [12, 76, 117, 234]
of which 4 are surviving nonsolos
reads assigned: 4686
start codons at 45, 92, 202, 230, 286, 360
confident = true

REJECT CONTIGS

TIG 1[bases=307]
5-200 ==> 5805-6000 on segment before TRBD1 exon 1 [len=6000] (mis=0)
208-255 ==> 0-47 on |550|TRBJ2-7|J-REGION| [len=47] (mis=4)
255-307 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [71, 132, 216, 225]
of which 3 are surviving nonsolos
reads assigned: 7283
start codons at 77, 87, 161
confident = false
did not find CDR3
now this is a cell
paired!

TCCCAGCCTGGAGACTCAGCCACCTACTTCTGTGCAGCCTCATTCCGGGGCGACTACAAGCTCAGCTTTGGAGCCGGAACCACAGTAACTGTAAGAGCAA <==> GAGCGGGGGGACTCAGCCGTGTATCTCTGTGCCAGCAGCTTACTTGGGGGGATCGGAGACATTCAGTACTTCGGCGCCGGGACCCGGCTCTCAGTGCTGG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.481 = CGGACGTAGAATTGTG-1

using 79 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[79]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.483 = CGGACGTAGATAGGAG-1

using 23 reads

====================================================================================

graph has 16 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[23]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.488 = CGGACGTAGCCATCGC-1

using 49 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[49]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.489 = CGGACGTAGCCCGAAA-1

using 98 reads

====================================================================================

graph has 92 edges initially, 6 edges after simplification

total ucounts = 8
nonsolo ucounts = 5[2, 4, 6, 38, 45]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.491 = CGGACGTAGCGTTTAC-1

using 234 reads

====================================================================================

graph has 269 edges initially, 4 edges after simplification

total ucounts = 18
nonsolo ucounts = 14[2^2, 3^2, 4, 6, 7^2, 9, 10, 21, 23, 52, 81]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.498 = CGGACGTAGGGAAACA-1

using 86 reads

====================================================================================

graph has 82 edges initially, 2 edges after simplification

total ucounts = 11
nonsolo ucounts = 8[2^3, 3, 5, 16, 19, 34]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.499 = CGGACGTAGGGATGGG-1

using 88 reads

====================================================================================

graph has 56 edges initially, 4 edges after simplification

total ucounts = 8
nonsolo ucounts = 7[2, 3, 4, 6, 15, 19, 38]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.500 = CGGACGTAGGGCTCTC-1

using 94 reads

====================================================================================

graph has 78 edges initially, 4 edges after simplification

total ucounts = 5
nonsolo ucounts = 4[3, 10, 37, 43]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.501 = CGGACGTAGGTACTCT-1

using 57 reads

====================================================================================

graph has 56 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 3[2, 12, 40]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.503 = CGGACGTAGTAATCCC-1

using 29 reads

====================================================================================

graph has 58 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 4[2, 3, 4, 16]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.504 = CGGACGTAGTACGACG-1

using 66 reads

====================================================================================

graph has 68 edges initially, 4 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[16, 21, 29]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.507 = CGGACGTAGTCGTTTG-1

using 80 reads

====================================================================================

graph has 92 edges initially, 4 edges after simplification

total ucounts = 9
nonsolo ucounts = 7[2^2, 3, 7, 14, 16, 34]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.508 = CGGACGTAGTCTCAAC-1

using 1205 reads

====================================================================================

graph has 482 edges initially, 6 edges after simplification

total ucounts = 16
nonsolo ucounts = 8[2^3, 5, 7, 28, 58, 1093]
surviving nonsolo ucounts = 1[1093]
ids = [13]

====================================================================================

UMI info for barcode CGGACGTAGTCTCAAC-1 contig 1 = AGGGAGGAAC...
umi TTCAATCCAT = 1098 reads: +391 validated

GOOD CONTIGS

TIG 1[bases=554]
0-121 ==> 26-147 on |470|TRAV17|5'UTR| [len=147] (mis=0)
121-458 ==> 0-337 on |471|TRAV17|L-REGION+V-REGION| [len=337] (mis=0)
463-512 ==> 8-57 on |417|TRAJ31|J-REGION| [len=57] (mis=0)
512-554 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 1 umis using 38 reads
cdr3 = CATDAENARLMF at 445, score = 6 + 7
umis assigned: [13]
of which 1 are surviving nonsolos
reads assigned: 1076
start codons at 121, 156, 233, 241, 335, 464, 475, 485
confident = false
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.509 = CGGACGTAGTGGAGTC-1

using 63 reads

====================================================================================

graph has 69 edges initially, 2 edges after simplification

total ucounts = 13
nonsolo ucounts = 8[2^3, 5^3, 7, 30]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.511 = CGGACGTAGTGTACTC-1

using 35 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[3, 31]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.515 = CGGACGTCAAGCCGTC-1

using 58 reads

====================================================================================

graph has 40 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[58]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.518 = CGGACGTCACACTGCG-1

using 3345 reads

====================================================================================

graph has 880 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[3344]
surviving nonsolo ucounts = 1[3344]
ids = [0]

====================================================================================

REJECT CONTIGS

TIG 1[bases=357]
5-193 ==> 377-565 on segment before TRBJ1-3 exon 1 [len=565] (mis=0)
193-243 ==> 0-50 on |538|TRBJ1-3|J-REGION| [len=50] (mis=0)
305-357 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 3299
start codons at 113
confident = false
did not find CDR3
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.522 = CGGACGTCACAGGTTT-1

using 72 reads

====================================================================================

graph has 91 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[72]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.528 = CGGACGTCACGGTGTC-1

using 29 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[29]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.537 = CGGACGTCATACTCTT-1

using 21067 reads

====================================================================================

graph has 8233 edges initially, 144 edges after simplification

total ucounts = 622
nonsolo ucounts = 452[2^84, 3^46, 4^31, 5^42, 6^29, 7^28, 8^22, 9^17, 10^19, 11^15, 12^15, 13^9, 14^13, 15^15, 16^11, 17^5, 18^5, 19^2, 20^6, 21^3, 22^5, 23^2, 24, 25^2, 26^2, 29^2, 34, 36, 40, 41, 42, 46, 50, 61, 62, 105^2, 334, 521, 817, 1576, 1740, 2067, 2099, 2111, 2589, 3110]
surviving nonsolo ucounts = 11[105, 334, 521, 817, 1576, 1740, 2067, 2099, 2111, 2589, 3110]
ids = [14, 255, 515, 358, 499, 500, 37, 469, 241, 131, ...]

====================================================================================

UMI info for barcode CGGACGTCATACTCTT-1 contig 1 = GGGGGTTAAG...
umi ACCAAATTCT = 2078 reads: +406 validated
umi CCTCGCTTTA = 2131 reads: +406 validated
umi CGAAATGCCA = 329 reads: +406 validated
umi TCCCCTTGGT = 1755 reads: +406 validated

UMI info for barcode CGGACGTCATACTCTT-1 contig 2 = ACCTGGAGCC...
umi AACCATTGGC = 86 reads: -392X +2 -1XX +2 invalidated
umi ATTTGTACAA = 2602 reads: +397 validated
umi GATCTTTACT = 813 reads: +397 validated
umi GGCAAAACGT = 2551 reads: -375 +2 -1XX +1 -3XX +4 -1XX +2 -1XX +2 -2XX +1 -1XX +1 invalidated
umi TAGTACGGTT = 2110 reads: +397 validated
umi TCCCATGGTA = 1582 reads: +397 validated
umi TCGGCTCAAT = 479 reads: -392X +2 -1XX +2 invalidated

GOOD CONTIGS

TIG 1[bases=501]
53-390 ==> 0-337 on |498|TRAV30|L-REGION+V-REGION| [len=337] (mis=1)
390-459 ==> 0-69 on |439|TRAJ52|J-REGION| [len=69] (mis=4)
459-501 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 4 umis using 357 reads
cdr3 = CGTETITGGTSYGKLTF at 377, score = 7 + 9
umis assigned: [37, 241, 255, 500]
of which 4 are surviving nonsolos
reads assigned: 6177
start codons at 53, 165, 228, 251, 285, 309, 411
confident = true

TIG 2[bases=492]
0-43 ==> 0-43 on |610|TRBV27|5'UTR| [len=43] (mis=0)
43-387 ==> 0-344 on |611|TRBV27|L-REGION+V-REGION| [len=344] (mis=3)
390-440 ==> 0-50 on |538|TRBJ1-3|J-REGION| [len=50] (mis=2)
440-492 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
junction support: 4 umis using 498 reads
cdr3 = CASSWTGTGNTIYF at 370, score = 7 + 7
umis assigned: [14, 131, 358, 398, 469, 499, 515]
of which 7 are surviving nonsolos
reads assigned: 10096
start codons at 35, 43, 65, 178, 185, 193, 247, 251, 275
confident = true
now this is a cell
paired!

TACTCAGGAACCTACTTCTGTGGCACAGAGACCATAACTGGTGGTACTAGCTATGGAAAGCTGACATTTGGACAAGGGACCATCTTGACTGTCCATCCAA <==> CCCAGCCCCAACCAGACCTCTCTGTACTTCTGTGCCAGCAGTTGGACAGGAACTGGAAACACCATATATTTTGGAGAGGGAAGTTGGCTCACTGTTGTAG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.542 = CGGACGTCATCCTAGA-1

using 24 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[24]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.544 = CGGACGTCATGCTAGT-1

using 21 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[21]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.547 = CGGACGTCATTGAGCT-1

using 71 reads

====================================================================================

graph has 86 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[2, 12, 55]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.553 = CGGACGTGTACTTAGC-1

using 26 reads

====================================================================================

graph has 12 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[26]
surviving nonsolo ucounts = 1[26]
ids = [0]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.559 = CGGACGTGTCAGAGGT-1

using 125 reads

====================================================================================

graph has 96 edges initially, 8 edges after simplification

total ucounts = 11
nonsolo ucounts = 9[4^2, 7, 8, 12, 13, 17, 27, 31]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.568 = CGGACGTGTCTCAACA-1

using 48 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[48]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.570 = CGGACGTGTCTCCACT-1

using 41695 reads

====================================================================================

graph has 9752 edges initially, 60 edges after simplification

total ucounts = 465
nonsolo ucounts = 291[2^55, 3^34, 4^36, 5^29, 6^16, 7^18, 8^12, 9^7, 10^10, 11^9, 12^6, 13^6, 14^6, 15^4, 16^4, 17, 18, 19, 22, 25, 26, 27, 31, 32^2, 34^2, 37, 39, 55, 60, 67, 71, 73, 74, 82, 485, 508, 932, 935, 971, 1171, 1223, 1388, 1408, 1465, 1522, 1542, 1570, 1710, 1847, 5338, 7370, 7822]
surviving nonsolo ucounts = 18[485, 508, 932, 935, 971, 1171, 1223, 1388, 1408, 1465, 1522, 1542, 1570, 1710, 1847, 5338, 7370, 7822]
ids = [254, 390, 77, 188, 353, 177, 11, 224, 125, 357, ...]

====================================================================================

UMI info for barcode CGGACGTGTCTCCACT-1 contig 1 = ATGCTTGTAA...
umi AACGATTGGA = 1223 reads: +400 validated
umi ATCTCTACCT = 931 reads: +400 validated
umi CAGCCTTCTT = 1717 reads: +400 validated
umi CAGTTTATTG = 1547 reads: +400 validated
umi CATTGCCTAT = 1451 reads: +12 -2XX +1 -6XX +379 invalidated
umi CGTACGGTCA = 1539 reads: +400 validated
umi CTACCAACCA = 912 reads: +400 validated
umi GACAGGGTAT = 1411 reads: +368 -2XX +1 -2XX +2 -1XX +1 -2XX +21 invalidated
umi GCCATTGCAT = 484 reads: +400 validated
umi GTGATTGCTC = 1843 reads: +400 validated
umi TATCCAGGGC = 976 reads: +400 validated
umi TATGCCTCCT = 1466 reads: +400 validated
umi TCTATTGGTC = 8021 reads: +69 -4XX +1 -1XX +1 -6XX +1 -6XX +1 -3XX +1 -1XX +1 -6XX +1 -146X +1 -11X +1 -10XX +1 -2XX +2 -1XX +122 invalidated

UMI info for barcode CGGACGTGTCTCCACT-1 contig 2 = GAGAAGCCTC...
umi CCTCAAGGCG = 1587 reads: +409 validated
umi CGTACAAGAG = 1178 reads: +409 validated
umi TCTTCAAGAG = 503 reads: +409 validated

GOOD CONTIGS

TIG 1[bases=501]
0-49 ==> 10-59 on |576|TRBV14|5'UTR| [len=59] (mis=0)
49-396 ==> 0-347 on |577|TRBV14|L-REGION+V-REGION| [len=347] (mis=1)
399-449 ==> 0-50 on |543|TRBJ2-1|J-REGION| [len=50] (mis=2)
449-501 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 13 umis using 1921 reads
cdr3 = CASSQAGYYNEQFF at 379, score = 9 + 8
umis assigned: [11, 77, 111, 115, 125, 178, 188, 224, 254, 321] and 3 others
of which 13 are surviving nonsolos
reads assigned: 22925
start codons at 0, 26, 49, 171, 191, 220, 272, 283, 407
confident = true

TIG 2[bases=568]
0-117 ==> 0-117 on |474|TRAV19|5'UTR| [len=117] (mis=1)
117-467 ==> 0-350 on |475|TRAV19|L-REGION+V-REGION| [len=350] (mis=5)
463-526 ==> 0-63 on |401|TRAJ17|J-REGION| [len=63] (mis=3)
526-568 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 2 umis using 129 reads
cdr3 = CALRLTKAAGNKLTF at 450, score = 7 + 9
umis assigned: [158, 177, 390]
of which 3 are surviving nonsolos
reads assigned: 3203
start codons at 111, 117, 174, 229, 250, 340, 349
confident = true

REJECT CONTIGS

TIG 1[bases=323]
4-135 ==> 26-157 on |555|TRBV10-2|L-REGION+V-REGION| [len=344] (mis=0)
135-220 ==> 259-344 on |555|TRBV10-2|L-REGION+V-REGION| [len=344] (mis=1)
224-271 ==> 0-47 on |550|TRBJ2-7|J-REGION| [len=47] (mis=4)
271-323 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [151, 260]
of which 2 are surviving nonsolos
reads assigned: 12535
start codons at 36, 98, 128
confident = false
did not find CDR3
now this is a cell
paired!

GTCGTGGACTCAGCAGTATACTTCTGTGCTCTGAGACTCACAAAAGCTGCAGGCAACAAGCTAACTTTTGGAGGAGGAACCAGGGTGCTAGTTAAACCAA <==> GCAGAACTGGAGGATTCTGGAGTTTATTTCTGTGCCAGCAGCCAAGCTGGCTATTACAATGAGCAGTTCTTCGGGCCAGGGACACGGCTCACCGTGCTAG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.574 = CGGACGTGTGACCAAG-1

using 32 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[31]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.575 = CGGACGTGTGAGTGAC-1

using 31 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[31]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.576 = CGGACGTGTGATAAAC-1

using 50 reads

====================================================================================

graph has 56 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 3[4, 8, 35]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.578 = CGGACGTGTGCATCTA-1

using 329 reads

====================================================================================

graph has 243 edges initially, 16 edges after simplification

total ucounts = 28
nonsolo ucounts = 21[2^2, 3^2, 4^2, 6, 8^2, 10, 12^2, 13^2, 16, 19, 28^2, 30, 38, 63]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.580 = CGGACGTGTGTAACGG-1

using 63 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[63]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.581 = CGGACGTGTGTATGGG-1

using 39 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[39]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.590 = CGGACGTTCACAGGCC-1

using 74 reads

====================================================================================

graph has 52 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[74]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.592 = CGGACGTTCAGAGACG-1

using 6085 reads

====================================================================================

graph has 1162 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 3[2^2, 6074]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.599 = CGGACGTTCATGGTCA-1

using 27 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[27]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.603 = CGGACGTTCCATGAAC-1

using 23 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 3[2, 3, 17]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.606 = CGGACGTTCCGAACGC-1

using 130 reads

====================================================================================

graph has 164 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[5, 14, 19, 29, 59]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.610 = CGGACGTTCCTCCTAG-1

using 85 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 3[2^2, 80]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.613 = CGGACGTTCGACCAGC-1

using 84 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[2, 82]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.621 = CGGACGTTCGGTTCGG-1

using 34 reads

====================================================================================

graph has 16 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[34]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.622 = CGGACGTTCGTTACGA-1

using 15 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[15]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.626 = CGGACGTTCTCGCTTG-1

using 24 reads

====================================================================================

graph has 6 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[24]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.630 = CGGACGTTCTTGCAAG-1

using 47 reads

====================================================================================

graph has 48 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[47]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.631 = CGGACTGAGAAGGTTT-1

using 44 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[43]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.633 = CGGACTGAGACTGTAA-1

using 209 reads

====================================================================================

graph has 160 edges initially, 8 edges after simplification

total ucounts = 15
nonsolo ucounts = 10[2^2, 3, 4, 8, 12, 21, 40, 50, 62]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.636 = CGGACTGAGATATGGT-1

using 101 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[101]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.638 = CGGACTGAGCAATCTC-1

using 55 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[55]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.643 = CGGACTGAGCCCAATT-1

using 61 reads

====================================================================================

graph has 48 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 5[2, 3, 4, 19, 28]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.644 = CGGACTGAGCGATAGC-1

using 72 reads

====================================================================================

graph has 50 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 4[2^3, 65]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.645 = CGGACTGAGCGATTCT-1

using 65 reads

====================================================================================

graph has 78 edges initially, 2 edges after simplification

total ucounts = 15
nonsolo ucounts = 8[2^3, 3, 4, 6, 14, 25]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.646 = CGGACTGAGCTAGTGG-1

using 181 reads

====================================================================================

graph has 90 edges initially, 8 edges after simplification

total ucounts = 10
nonsolo ucounts = 9[3^2, 5, 6, 8, 15, 26, 53, 61]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.651 = CGGACTGAGTACACCT-1

using 520 reads

====================================================================================

graph has 399 edges initially, 18 edges after simplification

total ucounts = 21
nonsolo ucounts = 17[2, 3^2, 4, 7, 10, 11, 12^2, 15, 17, 52, 58, 71, 76, 81, 82]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.653 = CGGACTGAGTCATCCA-1

using 36 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 7[2, 3, 4, 5, 6, 7^2]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.654 = CGGACTGAGTCCATAC-1

using 8824 reads

====================================================================================

graph has 1980 edges initially, 2 edges after simplification

total ucounts = 13
nonsolo ucounts = 5[3, 4, 5, 11, 8793]
surviving nonsolo ucounts = 1[8793]
ids = [6]

====================================================================================

REJECT CONTIGS

TIG 1[bases=310]
14-85 ==> 0-71 on segment before TRBJ2-5 exon 1 [len=71] (mis=0)
85-133 ==> 0-48 on |548|TRBJ2-5|J-REGION| [len=48] (mis=0)
133-205 ==> 0-72 on segment before TRBJ2-6 exon 1 [len=72] (mis=0)
258-310 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [6]
of which 1 are surviving nonsolos
reads assigned: 8685
start codons at 
confident = false
did not find CDR3
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.655 = CGGACTGAGTGAAGAG-1

using 61 reads

====================================================================================

graph has 46 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[60]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.660 = CGGACTGCAACTGGCC-1

using 53 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[53]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.665 = CGGACTGCAATGAAAC-1

using 49 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[49]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.666 = CGGACTGCAATGAATG-1

using 218 reads

====================================================================================

graph has 148 edges initially, 6 edges after simplification

total ucounts = 13
nonsolo ucounts = 9[2, 3, 6, 9, 10, 26, 28, 56, 74]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.667 = CGGACTGCACACGCTG-1

using 650 reads

====================================================================================

graph has 433 edges initially, 12 edges after simplification

total ucounts = 21
nonsolo ucounts = 19[2, 3, 4, 5, 8^2, 11, 13, 15, 21, 22, 25, 28^2, 44, 100, 101, 104, 106]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.672 = CGGACTGCACCAGTTA-1

using 125 reads

====================================================================================

graph has 126 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2, 13, 22, 86]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.673 = CGGACTGCACCGTTGG-1

using 119 reads

====================================================================================

graph has 48 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[119]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.674 = CGGACTGCACGAGAGT-1

using 39 reads

====================================================================================

graph has 64 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[39]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.682 = CGGACTGCAGATAATG-1

using 42 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[42]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.683 = CGGACTGCAGCTGCAC-1

using 71 reads

====================================================================================

graph has 122 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[71]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.685 = CGGACTGCAGGGCATA-1

using 34 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[3, 30]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.687 = CGGACTGCAGTATAAG-1

using 40 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[40]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.688 = CGGACTGCAGTCGTGC-1

using 57 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 1[55]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.691 = CGGACTGCATACGCCG-1

using 121 reads

====================================================================================

graph has 72 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[5, 13, 101]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.692 = CGGACTGCATAGACTC-1

using 43 reads

====================================================================================

graph has 64 edges initially, 4 edges after simplification

total ucounts = 5
nonsolo ucounts = 4[3, 4, 14, 21]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.698 = CGGACTGCATGCCACG-1

using 947 reads

====================================================================================

graph has 398 edges initially, 12 edges after simplification

total ucounts = 41
nonsolo ucounts = 31[2^5, 3, 4^2, 5, 7, 9^3, 11, 12^2, 15, 21, 25, 29, 40, 41, 43, 47, 59, 62, 65, 66, 96, 98, 135]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.703 = CGGACTGGTAAATACG-1

using 16963 reads

====================================================================================

graph has 7673 edges initially, 184 edges after simplification

total ucounts = 740
nonsolo ucounts = 548[2^76, 3^54, 4^62, 5^35, 6^27, 7^32, 8^25, 9^18, 10^23, 11^7, 12^15, 13^17, 14^16, 15^12, 16^15, 17^12, 18^16, 19^12, 20^12, 21^12, 22^3, 23^7, 24^3, 25^3, 26^5, 27^4, 28^3, 29^4, 30^2, 32^2, 33, 35, 36, 37^2, 40, 46, 51, 60, 66, 87, 94, 206, 10958]
surviving nonsolo ucounts = 2[206, 10958]
ids = [687, 14]

====================================================================================

REJECT CONTIGS

TIG 1[bases=497]
0-46 ==> 0-46 on |661|TRBV6-6|5'UTR| [len=46] (mis=0)
46-382 ==> 0-336 on |662|TRBV6-6|L-REGION+V-REGION| [len=344] (mis=2)
407-445 ==> 11-49 on |546|TRBJ2-3|J-REGION| [len=49] (mis=0)
445-497 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
cdr3 = CASPIFLPE at 373, score = 9 + 4
umis assigned: [14, 687]
of which 2 are surviving nonsolos
reads assigned: 10175
start codons at 4, 46, 104, 157, 181, 196, 223, 287
confident = false
not full
frameshifted full length stopped transcript of length 497
VJ delta = 1
not full
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.708 = CGGACTGGTATAGTAG-1

using 39 reads

====================================================================================

graph has 16 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[39]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.709 = CGGACTGGTCAAACTC-1

using 27 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[27]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.710 = CGGACTGGTCAAAGAT-1

using 418 reads

====================================================================================

graph has 294 edges initially, 14 edges after simplification

total ucounts = 25
nonsolo ucounts = 19[2^4, 3^2, 4, 7, 8, 15, 17, 19, 22, 23, 34, 41, 59, 71, 78]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.713 = CGGACTGGTCAGAAGC-1

using 42 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[42]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.716 = CGGACTGGTCCAGTTA-1

using 15226 reads

====================================================================================

graph has 7952 edges initially, 142 edges after simplification

total ucounts = 874
nonsolo ucounts = 633[2^114, 3^83, 4^60, 5^45, 6^49, 7^27, 8^29, 9^30, 10^23, 11^26, 12^18, 13^18, 14^10, 15^11, 16^11, 17^9, 18^12, 19^9, 20^3, 21^8, 22^5, 23^4, 24^3, 25, 26^2, 27^2, 29, 31, 35, 37, 39, 40^2, 41, 43, 48, 49, 51^3, 55, 56^2, 100, 184, 2152, 7250]
surviving nonsolo ucounts = 3[184, 2152, 7250]
ids = [757, 145, 357]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.717 = CGGACTGGTCCCTTGT-1

using 87 reads

====================================================================================

graph has 146 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[87]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.720 = CGGACTGGTCTAACGT-1

using 40 reads

====================================================================================

graph has 48 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[40]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.728 = CGGACTGGTGGGTCAA-1

using 68 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[68]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.729 = CGGACTGGTGTGAATA-1

using 116 reads

====================================================================================

graph has 116 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 5[2^3, 14, 96]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.734 = CGGACTGGTTCGGCAC-1

using 44 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[44]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.739 = CGGACTGTCAACACGT-1

using 49 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[49]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.741 = CGGACTGTCAATCTCT-1

using 33 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 4[2, 4^2, 22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.745 = CGGACTGTCACTCCTG-1

using 80 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[80]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.747 = CGGACTGTCAGGCAAG-1

using 61 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[61]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.749 = CGGACTGTCATAGCAC-1

using 74 reads

====================================================================================

graph has 70 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 7[2, 3, 4, 5, 13, 21, 24]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.752 = CGGACTGTCCCATTAT-1

using 89 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[2, 87]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.756 = CGGACTGTCGAACGGA-1

using 15 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[15]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.764 = CGGACTGTCTGAAAGA-1

using 21 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[21]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.765 = CGGACTGTCTGAGTGT-1

using 303 reads

====================================================================================

graph has 174 edges initially, 10 edges after simplification

total ucounts = 25
nonsolo ucounts = 22[2^4, 3, 4^2, 6^3, 7, 10, 11^2, 12^3, 13, 28, 33, 53, 61]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.768 = CGGACTGTCTTCAACT-1

using 31 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[31]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.771 = CGGAGCTAGAAAGTGG-1

using 64 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[64]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.773 = CGGAGCTAGAAGGGTA-1

using 6032 reads

====================================================================================

graph has 1292 edges initially, 4 edges after simplification

total ucounts = 7
nonsolo ucounts = 4[8, 10, 28, 5983]
surviving nonsolo ucounts = 1[5983]
ids = [4]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.776 = CGGAGCTAGACAGAGA-1

using 98 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[98]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.780 = CGGAGCTAGATCCCAT-1

using 43 reads

====================================================================================

graph has 40 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 3[2, 5, 35]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.786 = CGGAGCTAGCCACGCT-1

using 84 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[84]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.788 = CGGAGCTAGCGAAGGG-1

using 1738 reads

====================================================================================

graph has 594 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 3[3, 4, 1728]
surviving nonsolo ucounts = 1[1728]
ids = [4]

====================================================================================

UMI info for barcode CGGAGCTAGCGAAGGG-1 contig 1 = TGGGGGATCT...
umi CGGTAAAAGT = 1745 reads: +406 validated

GOOD CONTIGS

TIG 1[bases=499]
41-388 ==> 0-347 on |689|TRBV7-9|L-REGION+V-REGION| [len=347] (mis=3)
398-447 ==> 0-49 on |546|TRBJ2-3|J-REGION| [len=49] (mis=0)
447-499 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 1 umis using 101 reads
cdr3 = CASSSGRDSSTDTQYF at 371, score = 7 + 8
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 1712
start codons at 41, 65, 150, 249, 362
confident = false
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.790 = CGGAGCTAGCGTTGCC-1

using 30 reads

====================================================================================

graph has 16 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[29]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.794 = CGGAGCTAGGACGAAA-1

using 776 reads

====================================================================================

graph has 244 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 3[2, 36, 735]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.805 = CGGAGCTCAAGGACTG-1

using 43132 reads

====================================================================================

graph has 12944 edges initially, 144 edges after simplification

total ucounts = 716
nonsolo ucounts = 477[2^95, 3^56, 4^46, 5^32, 6^25, 7^25, 8^20, 9^18, 10^17, 11^11, 12^17, 13^9, 14^10, 15^11, 16^9, 17^7, 18^3, 19^3, 20^7, 21, 22^3, 23^3, 24^2, 25, 26^2, 27, 28, 29, 30, 32^3, 36, 37^2, 38, 41, 45, 53, 57, 63, 66, 67, 105, 116, 141, 210, 697, 707, 758, 771, 805, 987, 1059, 1271, 1289, 1297, 1319, 1418, 1636, 1658, 1696, 1734, 1849, 1925, 2066, 2134, 2494, 8940]
surviving nonsolo ucounts = 22[697, 707, 758, 771, 805, 987, 1059, 1271, 1289, 1297, 1319, 1418, 1636, 1658, 1696, 1734, 1849, 1925, 2066, 2134, 2494, 8940]
ids = [456, 518, 30, 74, 711, 315, 8, 257, 642, 110, ...]

====================================================================================

UMI info for barcode CGGAGCTCAAGGACTG-1 contig 1 = AGAATGCTTA...
umi AAAGATATCT = 1065 reads: +406 validated
umi AAGAATTCGC = 519 reads: +381 -1 +2 -1 +3 -3 +7 -1 +7 non-validated
umi AAGTGGGACA = 1868 reads: +406 validated
umi AATGAATGTA = 1319 reads: +406 validated
umi ACCTAGCTTA = 531 reads: +406 validated
umi ATCACTTCTT = 1664 reads: +406 validated
umi ATGAGATTGG = 2072 reads: +406 validated
umi CATGTTACCG = 1737 reads: +406 validated
umi CCAGATTCTT = 1272 reads: +406 validated
umi CGCGAAGATC = 1696 reads: +406 validated
umi CGTATGTGCA = 2184 reads: +310 -6XX +90 invalidated
umi GCCTCCCCTG = 1918 reads: +406 validated
umi GCTATCTCCG = 702 reads: -2X +404 invalidated
umi TGCTTATTTG = 1293 reads: +406 validated
umi TTAAACTAGG = 2498 reads: +406 validated

UMI info for barcode CGGAGCTCAAGGACTG-1 contig 2 = GAGAAGCCTC...
umi AAACGGGCTA = 1338 reads: -369 +2 -1XX +2 -3XX +8 -1XX +3 -4XX +2 -1XX +1 -2XX +2 -2XX invalidated
umi AGCCTCTGTG = 1286 reads: +403 validated
umi GGTTGATCCG = 166 reads: -373 +2 -3X +2 -1XX +4 -2XX +2 -1XX +1 -1XX +3 -2XX +1 -1XX +2 -2XX invalidated
umi GTAGGTCACC = 708 reads: +403 validated

GOOD CONTIGS

TIG 1[bases=505]
0-47 ==> 0-47 on |692|TRBV9|5'UTR| [len=47] (mis=0)
47-390 ==> 0-343 on |693|TRBV9|L-REGION+V-REGION| [len=343] (mis=0)
403-453 ==> 0-50 on |543|TRBJ2-1|J-REGION| [len=50] (mis=5)
453-505 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 14 umis using 1417 reads
cdr3 = CASSVDGSGRGDNEQFF at 374, score = 9 + 8
umis assigned: [8, 30, 38, 45, 74, 156, 177, 246, 257, 308] and 5 others
of which 15 are surviving nonsolos
reads assigned: 21905
start codons at 3, 47, 169, 255, 390, 411
confident = true

TIG 2[bases=562]
0-117 ==> 0-117 on |474|TRAV19|5'UTR| [len=117] (mis=1)
117-467 ==> 0-350 on |475|TRAV19|L-REGION+V-REGION| [len=350] (mis=3)
465-520 ==> 0-55 on |406|TRAJ21|J-REGION| [len=55] (mis=5)
520-562 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 2 umis using 71 reads
cdr3 = CALSGLRFNKFYF at 450, score = 7 + 7
umis assigned: [5, 110, 507, 518]
of which 3 are surviving nonsolos
reads assigned: 3464
start codons at 111, 117, 174, 229, 250, 340, 349, 508
confident = true

REJECT CONTIGS

TIG 1[bases=648]
3-548 ==> 110-655 on segment before TRBJ1-1 exon 1 [len=655] (mis=0)
548-596 ==> 0-48 on |536|TRBJ1-1|J-REGION| [len=48] (mis=0)
596-648 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
umis assigned: [315, 592, 711]
of which 3 are surviving nonsolos
reads assigned: 3340
start codons at 6, 31, 67, 250, 292, 309, 336, 375, 394, 507, 516
confident = false
did not find CDR3

TIG 2[bases=315]
4-61 ==> 47-104 on segment before TRBJ2-3 exon 1 [len=104] (mis=0)
61-110 ==> 0-49 on |546|TRBJ2-3|J-REGION| [len=49] (mis=0)
110-172 ==> 0-62 on segment before TRBJ2-4 exon 1 [len=102] (mis=0)
168-213 ==> 57-102 on segment before TRBJ2-4 exon 1 [len=102] (mis=0)
263-315 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [449]
of which 1 are surviving nonsolos
reads assigned: 8837
start codons at 
confident = false
did not find CDR3
now this is a cell
paired!

TCACAAGTCGTGGACTCAGCAGTATACTTCTGTGCTCTGAGTGGGCTAAGATTCAACAAATTTTACTTTGGATCTGGGACCAAACTCAATGTAAAACCAA <==> GGGGACTCAGCTTTGTATTTCTGTGCCAGCAGCGTAGATGGTAGCGGGAGGGGAGACAATGAGCAGTTCTTCGGGCCAGGGACACGGCTCACCGTGCTAG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.811 = CGGAGCTCAATGGAGC-1

using 64 reads

====================================================================================

graph has 40 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[4, 60]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.812 = CGGAGCTCAATGTTGC-1

using 40 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[2, 17, 19]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.815 = CGGAGCTCACAAGCCC-1

using 815 reads

====================================================================================

graph has 866 edges initially, 18 edges after simplification

total ucounts = 140
nonsolo ucounts = 92[2^18, 3^20, 4^14, 5^7, 6^3, 7^7, 8^3, 9^4, 11^2, 12^3, 15, 17, 19^2, 25, 27, 42, 46, 48, 55, 82]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.817 = CGGAGCTCACAGCGTC-1

using 59 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[59]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.823 = CGGAGCTCACCTCGTT-1

using 46 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[45]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.826 = CGGAGCTCACGGTAGA-1

using 1385 reads

====================================================================================

graph has 1462 edges initially, 26 edges after simplification

total ucounts = 225
nonsolo ucounts = 139[2^28, 3^21, 4^13, 5^12, 6^6, 7^6, 8^2, 9^10, 10^3, 11^2, 12^6, 13^5, 15^2, 17^4, 19^2, 21^3, 22, 23, 25, 26^2, 29^2, 31, 36, 39, 40, 52, 56, 62]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.828 = CGGAGCTCACGTGAGA-1

using 32 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[4^2, 22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.832 = CGGAGCTCAGATAATG-1

using 29 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[29]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.840 = CGGAGCTCAGGGTTAG-1

using 78 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[78]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.841 = CGGAGCTCAGTGGGAT-1

using 22 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.844 = CGGAGCTCATATACCG-1

using 327 reads

====================================================================================

graph has 188 edges initially, 12 edges after simplification

total ucounts = 48
nonsolo ucounts = 32[2^3, 3^5, 4^2, 5^4, 6^6, 7^2, 8^3, 9^2, 10, 11, 24, 27, 98]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.845 = CGGAGCTCATCACGTA-1

using 125 reads

====================================================================================

graph has 48 edges initially, 4 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[5, 38, 80]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.847 = CGGAGCTCATCGACGC-1

using 282 reads

====================================================================================

graph has 148 edges initially, 6 edges after simplification

total ucounts = 14
nonsolo ucounts = 12[2^2, 3, 8, 11, 12^2, 13, 24, 25, 80, 88]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.848 = CGGAGCTCATCGGACC-1

using 24 reads

====================================================================================

graph has 4 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[24]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.849 = CGGAGCTCATCGGTTA-1

using 56 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[56]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.850 = CGGAGCTCATGCGCAC-1

using 863 reads

====================================================================================

graph has 792 edges initially, 14 edges after simplification

total ucounts = 116
nonsolo ucounts = 66[2^13, 3^11, 4^9, 5^3, 6^2, 7^7, 8^2, 9, 12, 13, 14, 15^2, 18, 19^2, 22, 23, 24, 27, 39, 40, 56, 66, 70, 125]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.854 = CGGAGCTGTAAGTTCC-1

using 37 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[36]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.858 = CGGAGCTGTATAAACG-1

using 36 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[36]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.860 = CGGAGCTGTCAGGACA-1

using 67 reads

====================================================================================

graph has 60 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 4[3^2, 5, 56]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.865 = CGGAGCTGTCTAGCGC-1

using 32021 reads

====================================================================================

graph has 11600 edges initially, 60 edges after simplification

total ucounts = 335
nonsolo ucounts = 217[2^47, 3^26, 4^26, 5^18, 6^16, 7^11, 8^11, 9^5, 10^4, 11^6, 12^4, 13^6, 14^3, 15^4, 16^5, 17, 18^2, 20, 21^3, 22, 23^3, 25, 29, 31, 35, 65, 67, 369, 680, 848, 2636, 4960, 5573, 7099, 8173]
surviving nonsolo ucounts = 8[369, 680, 848, 2636, 4960, 5573, 7099, 8173]
ids = [142, 59, 224, 163, 137, 237, 189, 64]

====================================================================================

UMI info for barcode CGGAGCTGTCTAGCGC-1 contig 1 = ACTATTTCTA...
umi GGCTCATCTC = 843 reads: +376 validated

GOOD CONTIGS

TIG 1[bases=494]
0-76 ==> 0-76 on |487|TRAV25|5'UTR| [len=76] (mis=0)
76-403 ==> 0-327 on |488|TRAV25|L-REGION+V-REGION| [len=327] (mis=2)
398-452 ==> 7-61 on |427|TRAJ40|J-REGION| [len=61] (mis=0)
452-494 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 1 umis using 57 reads
cdr3 = CAGTYKYIF at 394, score = 6 + 8
umis assigned: [224]
of which 1 are surviving nonsolos
reads assigned: 827
start codons at 58, 76, 94, 105, 109, 128, 142, 164, 377
confident = true

REJECT CONTIGS

TIG 1[bases=463]
0-21 ==> 35-56 on |461|TRAV12-3|5'UTR| [len=56] (mis=0)
0-21 ==> 11148-11169 on segment before TRAV12-1 exon 1 [len=11169] (mis=0)
21-357 ==> 0-336 on |462|TRAV12-3|L-REGION+V-REGION| [len=343] (mis=0)
366-421 ==> 0-55 on |406|TRAJ21|J-REGION| [len=55] (mis=0)
421-463 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [163]
of which 1 are surviving nonsolos
reads assigned: 2587
start codons at 21, 24, 186, 228, 259, 356, 362, 409
confident = false
full length stopped transcript of length 463
frameshifted full length stopped transcript of length 463
did not find CDR3

TIG 2[bases=341]
4-240 ==> 1240-1476 on segment before TRAJ35 exon 1 [len=1476] (mis=0)
240-299 ==> 0-59 on |421|TRAJ35|J-REGION| [len=59] (mis=0)
299-341 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [237]
of which 1 are surviving nonsolos
reads assigned: 5502
start codons at 40, 64, 113, 122, 127, 189, 197, 205, 227, 254
confident = false
did not find CDR3
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.866 = CGGAGCTGTCTTTCAT-1

using 277 reads

====================================================================================

graph has 62 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[3, 5, 267]
surviving nonsolo ucounts = 1[267]
ids = [1]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.869 = CGGAGCTGTGTTAAGA-1

using 176 reads

====================================================================================

graph has 192 edges initially, 10 edges after simplification

total ucounts = 8
nonsolo ucounts = 7[3, 5^2, 26, 31, 40, 65]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.877 = CGGAGCTTCACCGTAA-1

using 287 reads

====================================================================================

graph has 252 edges initially, 10 edges after simplification

total ucounts = 20
nonsolo ucounts = 13[2, 3^2, 4, 7, 8, 16, 22, 30, 35, 38, 40, 72]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.878 = CGGAGCTTCACCTCGT-1

using 56 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[56]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.881 = CGGAGCTTCCCATTTA-1

using 32 reads

====================================================================================

graph has 40 edges initially, 4 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[16^2]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.887 = CGGAGCTTCGCATGAT-1

using 35 reads

====================================================================================

graph has 16 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[12, 23]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.888 = CGGAGCTTCGCGATCG-1

using 94 reads

====================================================================================

graph has 56 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[94]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.889 = CGGAGCTTCGCGGATC-1

using 48 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[48]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.892 = CGGAGCTTCTATGTGG-1

using 30 reads

====================================================================================

graph has 50 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 1[26]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.900 = CGGAGTCAGAAACCGC-1

using 85 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[85]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.902 = CGGAGTCAGAATTGTG-1

using 64 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[63]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.904 = CGGAGTCAGACGCAAC-1

using 39 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[39]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.909 = CGGAGTCAGCCACGCT-1

using 9768 reads

====================================================================================

graph has 4693 edges initially, 56 edges after simplification

total ucounts = 380
nonsolo ucounts = 248[2^56, 3^42, 4^25, 5^19, 6^15, 7^15, 8^7, 9^6, 10^7, 11^6, 12^8, 13^7, 14^2, 15^2, 16^5, 18^4, 21, 23, 24, 26, 28^2, 30, 32, 34, 35, 36, 38, 57, 65, 70, 397, 767, 879, 884, 1421, 1653, 1817]
surviving nonsolo ucounts = 7[397, 767, 879, 884, 1421, 1653, 1817]
ids = [0, 321, 110, 273, 240, 242, 21]

====================================================================================

UMI info for barcode CGGAGTCAGCCACGCT-1 contig 1 = TTCAGCTCTG...
umi AAAACCCTGC = 391 reads: +338 -8 +1 -2 +1 -2 +1 -1 +2 -1 +5 -1X +10 -1 +1 -1 +4 -1 +3 -2 +1 -2 +8 invalidated
umi AAGTCTGTCA = 1834 reads: +397 validated
umi CATACGAGTT = 887 reads: +397 validated
umi GGGTCAGGGA = 1434 reads: +397 validated
umi GGTACATTGT = 1668 reads: +369 -1XX +27 invalidated
umi TAAGCCGCCA = 891 reads: +397 validated
umi TCGACGTCCA = 766 reads: +385 -5 +7 non-validated

GOOD CONTIGS

TIG 1[bases=650]
0-201 ==> 0-201 on |634|TRBV5-4|5'UTR| [len=201] (mis=1)
201-544 ==> 0-343 on |635|TRBV5-4|L-REGION+V-REGION| [len=343] (mis=4)
547-598 ==> 0-51 on |544|TRBJ2-2|J-REGION| [len=51] (mis=2)
598-650 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 5 umis using 397 reads
cdr3 = CASSRDLNTGELFF at 528, score = 8 + 9
umis assigned: [0, 21, 110, 240, 242, 273, 321]
of which 7 are surviving nonsolos
reads assigned: 7708
start codons at 67, 201, 323, 421, 487
confident = true
now this is a cell
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.914 = CGGAGTCAGCTCAACT-1

using 25 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[11, 13]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.915 = CGGAGTCAGCTTCGCG-1

using 61 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[61]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.917 = CGGAGTCAGGCAGGTT-1

using 25 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[25]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.922 = CGGAGTCAGGTGATAT-1

using 48 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[8, 39]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.931 = CGGAGTCCAAACCTAC-1

using 39 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 2[5, 32]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.942 = CGGAGTCCACAAGACG-1

using 59 reads

====================================================================================

graph has 50 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[59]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.943 = CGGAGTCCACACAGAG-1

using 305 reads

====================================================================================

graph has 152 edges initially, 8 edges after simplification

total ucounts = 12
nonsolo ucounts = 10[2^2, 4^2, 7, 17, 54, 58, 69, 86]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.946 = CGGAGTCCACCAGTTA-1

using 37 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[2, 9, 24]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.948 = CGGAGTCCACCGATAT-1

using 197 reads

====================================================================================

graph has 148 edges initially, 6 edges after simplification

total ucounts = 14
nonsolo ucounts = 12[2, 3, 4, 7^2, 15^2, 23^2, 24, 25, 47]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.953 = CGGAGTCCACGACGAA-1

using 23 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[2, 4, 17]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.954 = CGGAGTCCACGTTGGC-1

using 51 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[51]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.955 = CGGAGTCCACTCAGGC-1

using 14 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[14]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.956 = CGGAGTCCACTTACGA-1

using 92 reads

====================================================================================

graph has 112 edges initially, 4 edges after simplification

total ucounts = 10
nonsolo ucounts = 3[7, 10, 68]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.970 = CGGAGTCCAGTGGAGT-1

using 403 reads

====================================================================================

graph has 336 edges initially, 8 edges after simplification

total ucounts = 15
nonsolo ucounts = 9[4, 13, 22, 25, 29, 58, 76, 77, 93]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.974 = CGGAGTCCATACGCCG-1

using 11324 reads

====================================================================================

graph has 3622 edges initially, 40 edges after simplification

total ucounts = 253
nonsolo ucounts = 150[2^32, 3^27, 4^14, 5^8, 6^8, 7^12, 8^8, 9^2, 10^7, 11^3, 12^5, 13^3, 14, 15, 17^3, 19, 20, 22^2, 25, 26, 33^2, 36, 41, 44, 73, 90, 245, 1016, 8739]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================

REJECT CONTIGS

TIG 1[bases=307]
8-248 ==> 327-567 on segment before TRAJ38 exon 1 [len=567] (mis=0)
248-265 ==> 0-17 on |424|TRAJ38|J-REGION| [len=62] (mis=0)
265-307 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [19, 181, 207]
of which 0 are surviving nonsolos
reads assigned: 9783
start codons at 52, 92, 239, 250
confident = false
did not find CDR3
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.977 = CGGAGTCCATATGGTC-1

using 55 reads

====================================================================================

graph has 32 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[55]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.986 = CGGAGTCGTAGCTTGT-1

using 26 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 2[3, 19]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.988 = CGGAGTCGTCAAAGAT-1

using 41 reads

====================================================================================

graph has 16 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[40]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.990 = CGGAGTCGTCATACTG-1

using 34 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[34]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.993 = CGGAGTCGTCCGAGTC-1

using 26 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[26]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.995 = CGGAGTCGTCGGATCC-1

using 45 reads

====================================================================================

graph has 18 edges initially, 4 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[44]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1004 = CGGAGTCTCAAAGACA-1

using 357 reads

====================================================================================

graph has 340 edges initially, 14 edges after simplification

total ucounts = 15
nonsolo ucounts = 12[6, 7, 8, 13, 14, 23, 31, 34, 42, 52, 58, 66]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1007 = CGGAGTCTCACGGTTA-1

using 20 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[20]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1008 = CGGAGTCTCACTTCAT-1

using 48 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[48]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1012 = CGGAGTCTCATGTCCC-1

using 1735 reads

====================================================================================

graph has 696 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 3[3, 4, 1724]
surviving nonsolo ucounts = 1[1724]
ids = [1]

====================================================================================

UMI info for barcode CGGAGTCTCATGTCCC-1 contig 1 = GGAGGCAGTG...
umi AAAATAATTG = 1729 reads: +391 validated

GOOD CONTIGS

TIG 1[bases=498]
0-55 ==> 23-78 on |597|TRBV20-1|5'UTR| [len=78] (mis=0)
55-390 ==> 0-335 on |598|TRBV20-1|L-REGION+V-REGION| [len=335] (mis=1)
398-446 ==> 0-48 on |548|TRBJ2-5|J-REGION| [len=48] (mis=2)
446-498 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 1 umis using 94 reads
cdr3 = CSARHPEEEETQYF at 376, score = 7 + 7
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 1695
start codons at 55, 193, 229, 235, 248, 308
confident = false
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1013 = CGGAGTCTCATTGCCC-1

using 11284 reads

====================================================================================

graph has 5180 edges initially, 62 edges after simplification

total ucounts = 507
nonsolo ucounts = 349[2^83, 3^53, 4^44, 5^30, 6^21, 7^18, 8^9, 9^16, 10^12, 11^8, 12^6, 13^9, 14^4, 15, 16^4, 17^4, 18^3, 19^3, 20, 21^2, 22^2, 25^2, 29^2, 38, 40, 49, 58, 66, 89, 103, 1375, 1657, 1712, 1765, 2130]
surviving nonsolo ucounts = 5[1375, 1657, 1712, 1765, 2130]
ids = [372, 488, 181, 425, 192]

====================================================================================

UMI info for barcode CGGAGTCTCATTGCCC-1 contig 1 = TGGGGATCCT...
umi CCTAGACATC = 1713 reads: +397 validated
umi CGCAACCCTC = 2136 reads: +397 validated
umi TAGTCAGTGA = 1354 reads: +397 validated
umi TTCTTGTCCT = 1627 reads: +397 validated

UMI info for barcode CGGAGTCTCATTGCCC-1 contig 2 = TGGGGAGTGC...
umi TCTTAGGCAT = 1765 reads: +394 validated

GOOD CONTIGS

TIG 1[bases=473]
24-366 ==> 0-342 on |733|TRBV11-2|L-REGION+V-REGION| [len=342] (mis=1)
370-421 ==> 0-51 on |544|TRBJ2-2|J-REGION| [len=51] (mis=4)
421-473 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 4 umis using 467 reads
cdr3 = CASSFGGTGELFF at 354, score = 8 + 9
umis assigned: [181, 192, 372, 488]
of which 4 are surviving nonsolos
reads assigned: 6722
start codons at 24, 166, 247
confident = true

TIG 2[bases=520]
84-424 ==> 0-340 on |514|TRAV5|L-REGION+V-REGION| [len=340] (mis=0)
428-478 ==> 10-60 on |731|TRAJ15|J-REGION| [len=60] (mis=0)
478-520 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 1 umis using 80 reads
cdr3 = CAESIKGTALIF at 411, score = 7 + 9
umis assigned: [425]
of which 1 are surviving nonsolos
reads assigned: 1735
start codons at 84, 138, 154, 303, 309
confident = true
now this is a cell
paired!

GACACCCAGACTGGGGACTCAGCTATCTACTTCTGTGCAGAGAGTATTAAAGGAACTGCTCTGATCTTTGGGAAGGGAACCACCTTATCAGTGAGTTCCA <==> CCTGCAAAGCTTGAGGACTCGGCCGTGTATCTCTGTGCCAGCAGCTTCGGGGGAACCGGGGAGCTGTTTTTTGGAGAAGGCTCTAGGCTGACCGTACTGG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1014 = CGGAGTCTCCAAACAC-1

using 75 reads

====================================================================================

graph has 12 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[75]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1015 = CGGAGTCTCCACTGGG-1

using 31 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[11, 20]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1017 = CGGAGTCTCCCAACGG-1

using 64 reads

====================================================================================

graph has 38 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[63]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1021 = CGGAGTCTCCGCGGTA-1

using 71 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[71]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1035 = CGGAGTCTCGTCCGTT-1

using 436 reads

====================================================================================

graph has 182 edges initially, 4 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[34, 401]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1038 = CGGAGTCTCTAACGGT-1

using 94 reads

====================================================================================

graph has 54 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[94]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1041 = CGGAGTCTCTCTGAGA-1

using 36 reads

====================================================================================

graph has 16 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[36]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1042 = CGGAGTCTCTGATACG-1

using 57 reads

====================================================================================

graph has 74 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[2^2, 4, 5, 40]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1045 = CGGAGTCTCTGGCGAC-1

using 21 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[21]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1050 = CGGAGTCTCTTCCTTC-1

using 39 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 2[7, 28]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1053 = CGGCTAGAGAAACCAT-1

using 128 reads

====================================================================================

graph has 96 edges initially, 4 edges after simplification

total ucounts = 10
nonsolo ucounts = 8[2^3, 3, 8, 15, 44, 50]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1065 = CGGCTAGAGCGATCCC-1

using 2917 reads

====================================================================================

graph has 1350 edges initially, 14 edges after simplification

total ucounts = 107
nonsolo ucounts = 65[2^16, 3^8, 4^7, 5^2, 6^4, 7^3, 8^6, 9^4, 10, 14, 15^2, 17^2, 18, 22, 23, 24, 27, 28, 35, 838, 1549]
surviving nonsolo ucounts = 2[838, 1549]
ids = [15, 22]

====================================================================================

UMI info for barcode CGGCTAGAGCGATCCC-1 contig 1 = GAGAGTCCTG...
umi ACCGAATCTA = 850 reads: +400 validated
umi AGGCACCGAG = 1525 reads: +400 validated

GOOD CONTIGS

TIG 1[bases=518]
0-66 ==> 0-66 on |657|TRBV6-5|5'UTR| [len=66] (mis=0)
66-410 ==> 0-344 on |658|TRBV6-5|L-REGION+V-REGION| [len=344] (mis=3)
418-466 ==> 0-48 on |548|TRBJ2-5|J-REGION| [len=48] (mis=1)
466-518 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 2 umis using 120 reads
cdr3 = CASSYGGRPQETQYF at 393, score = 9 + 7
umis assigned: [15, 22]
of which 2 are surviving nonsolos
reads assigned: 2334
start codons at 24, 52, 66, 124, 177, 201, 208, 216, 243, 307, 316
confident = false
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1066 = CGGCTAGAGCGCCTCA-1

using 84 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[84]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1081 = CGGCTAGAGGTACTCT-1

using 142 reads

====================================================================================

graph has 120 edges initially, 4 edges after simplification

total ucounts = 13
nonsolo ucounts = 12[2^4, 4, 9, 11, 12, 14, 15, 31, 37]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1083 = CGGCTAGAGGTGATAT-1

using 184 reads

====================================================================================

graph has 58 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[184]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1088 = CGGCTAGAGTAGTGCG-1

using 267 reads

====================================================================================

graph has 144 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 1[258]
surviving nonsolo ucounts = 1[258]
ids = [5]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1092 = CGGCTAGAGTCTCCTC-1

using 25 reads

====================================================================================

graph has 32 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[2, 23]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1105 = CGGCTAGCAACTGGCC-1

using 104 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[104]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1108 = CGGCTAGCAAGTTAAG-1

using 39 reads

====================================================================================

graph has 16 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[39]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1113 = CGGCTAGCACAACGCC-1

using 62 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[62]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1117 = CGGCTAGCACCAGTTA-1

using 105 reads

====================================================================================

graph has 90 edges initially, 4 edges after simplification

total ucounts = 9
nonsolo ucounts = 4[2, 3, 25, 70]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1119 = CGGCTAGCACCGTTGG-1

using 17 reads

====================================================================================

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[17]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1120 = CGGCTAGCACCTATCC-1

using 41 reads

====================================================================================

graph has 12 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[41]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1125 = CGGCTAGCACGTTGGC-1

using 18378 reads

====================================================================================

graph has 6449 edges initially, 52 edges after simplification

total ucounts = 317
nonsolo ucounts = 200[2^58, 3^31, 4^21, 5^12, 6^10, 7^13, 8^3, 9^2, 10^2, 11^4, 12^3, 13^2, 14^2, 15^2, 16, 18, 19^2, 20^2, 21^3, 22, 23, 25, 28^3, 29, 32, 33, 34, 43, 51, 75, 189, 219, 467, 798, 1037, 1049, 1248, 1277, 1563, 1609, 1797, 1856, 3796]
surviving nonsolo ucounts = 13[189, 219, 467, 798, 1037, 1049, 1248, 1277, 1563, 1609, 1797, 1856, 3796]
ids = [191, 110, 273, 166, 203, 156, 201, 171, 115, 151, ...]

====================================================================================

UMI info for barcode CGGCTAGCACGTTGGC-1 contig 1 = ATTCTTTCTT...
umi ACGGTTTGGG = 1873 reads: +403 validated
umi CTTTTATCAC = 1623 reads: +403 validated
umi GCAAGGATCC = 798 reads: +403 validated
umi GTTCTATTGG = 1040 reads: +403 validated
umi TGCTCAGCTC = 140 reads: +365 -33 +3 -2 non-validated
umi TGGCCTTTTG = 3099 reads: -381 +2 -1XX +3 -1XX +2 -1XX +1 -1XX +2 -1XX +2 -2XX +1 -1XX +1 invalidated

UMI info for barcode CGGCTAGCACGTTGGC-1 contig 2 = AGATCAGAAG...
umi AACCTGGTCA = 1802 reads: +400 validated
umi CCTAGCACTG = 216 reads: +400 validated
umi CGCCCTATGC = 1570 reads: +400 validated
umi GAGCTGCTTT = 822 reads: -15X +2 -3XX +1 -5XX +1 -4XX +4 -13XX +352 invalidated
umi GCCCACATCA = 1288 reads: +400 validated
umi GGTTGTCCAC = 180 reads: +400 validated
umi GTTCCCGGGC = 1267 reads: +400 validated

GOOD CONTIGS

TIG 1[bases=475]
0-20 ==> 0-20 on |612|TRBV28|5'UTR| [len=20] (mis=0)
20-353 ==> 0-333 on |613|TRBV28|L-REGION+V-REGION| [len=344] (mis=0)
364-376 ==> 0-12 on |535|TRBD1|D-REGION| [len=12] (mis=2)
375-423 ==> 0-48 on |537|TRBJ1-2|J-REGION| [len=48] (mis=5)
423-475 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
junction support: 4 umis using 372 reads
cdr3 = CAVQFDGQGGRYGYTF at 347, score = 6 + 9
umis assigned: [30, 151, 166, 203, 273, 279]
of which 6 are surviving nonsolos
reads assigned: 8465
start codons at 20, 78, 142, 155, 162, 170, 225, 228, 236, 338, 363, 381
confident = true

TIG 2[bases=488]
0-46 ==> 0-46 on |506|TRAV38-2/DV8|5'UTR| [len=46] (mis=0)
46-395 ==> 0-349 on |507|TRAV38-2/DV8|L-REGION+V-REGION| [len=349] (mis=4)
380-446 ==> 0-66 on |418|TRAJ32|J-REGION| [len=66] (mis=4)
446-488 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 7 umis using 385 reads
cdr3 = CAYGGATNKLIF at 379, score = 7 + 8
umis assigned: [8, 110, 115, 156, 171, 191, 201]
of which 7 are surviving nonsolos
reads assigned: 6998
start codons at 46, 51, 103, 136, 179, 238, 278, 362, 370, 386
confident = true
now this is a cell
paired!

GACTCACAGCTGGGGGATGCCGCGATGTATTTCTGTGCTTATGGTGGTGCTACAAACAAGCTCATCTTTGGAACTGGCACTCTGCTTGCTGTCCAGCCAA <==> ACCAACCAGACATCTATGTACCTCTGTGCCGTTCAGTTTGATGGACAGGGGGGACGATATGGCTACACCTTCGGTTCGGGGACCAGGTTAACCGTTGTAG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1132 = CGGCTAGCAGATGAGC-1

using 7878 reads

====================================================================================

graph has 4398 edges initially, 64 edges after simplification

total ucounts = 553
nonsolo ucounts = 374[2^86, 3^59, 4^47, 5^27, 6^30, 7^20, 8^17, 9^13, 10^4, 11^8, 12^6, 13^10, 14^7, 15^4, 16, 17^3, 18, 19^3, 20^2, 21^2, 22^3, 23^5, 25^2, 26, 29, 30, 32, 35, 37, 40, 45, 47, 53, 59, 68, 75, 4935]
surviving nonsolo ucounts = 1[4935]
ids = [281]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1133 = CGGCTAGCAGATGGCA-1

using 57 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[6, 14, 35]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1143 = CGGCTAGCATCCTTGC-1

using 51 reads

====================================================================================

graph has 32 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[51]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1146 = CGGCTAGCATGCCTAA-1

using 1180 reads

====================================================================================

graph has 536 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[3, 1176]
surviving nonsolo ucounts = 1[1176]
ids = [2]

====================================================================================

UMI info for barcode CGGCTAGCATGCCTAA-1 contig 1 = GAAACAGAAT...
umi TTTCTAAACC = 1226 reads: +451 validated

GOOD CONTIGS

TIG 1[bases=501]
8-405 ==> 0-397 on |516|TRAV6|L-REGION+V-REGION| [len=397] (mis=2)
399-459 ==> 0-60 on |437|TRAJ5|J-REGION| [len=60] (mis=1)
459-501 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 1 umis using 90 reads
cdr3 = CALDTGRRALTF at 392, score = 8 + 9
umis assigned: [2]
of which 1 are surviving nonsolos
reads assigned: 1153
start codons at 8, 65, 282
confident = false
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1150 = CGGCTAGGTAAACACA-1

using 169 reads

====================================================================================

graph has 139 edges initially, 4 edges after simplification

total ucounts = 18
nonsolo ucounts = 12[2^3, 5, 6, 10, 11, 14, 16^2, 26, 53]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1154 = CGGCTAGGTAAGTTCC-1

using 26 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[2, 11^2]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1159 = CGGCTAGGTAGCACGA-1

using 360 reads

====================================================================================

graph has 266 edges initially, 10 edges after simplification

total ucounts = 17
nonsolo ucounts = 14[2, 3, 6, 9^2, 14, 18, 19, 23, 28, 35, 37, 60, 94]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1160 = CGGCTAGGTAGCGCTC-1

using 43 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[43]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1165 = CGGCTAGGTAGTGAAT-1

using 19 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 2[2, 15]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1167 = CGGCTAGGTATATGGA-1

using 34 reads

====================================================================================

graph has 48 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 6[2^3, 8^2, 9]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1175 = CGGCTAGGTCCAGTAT-1

using 37 reads

====================================================================================

graph has 24 edges initially, 4 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[15, 22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1181 = CGGCTAGGTCGCTTTC-1

using 39 reads

====================================================================================

graph has 41 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[3, 36]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1183 = CGGCTAGGTCGTGGCT-1

using 24 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[24]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1184 = CGGCTAGGTCTAAACC-1

using 5788 reads

====================================================================================

graph has 4999 edges initially, 120 edges after simplification

total ucounts = 894
nonsolo ucounts = 617[2^134, 3^86, 4^63, 5^47, 6^49, 7^34, 8^18, 9^17, 10^13, 11^17, 12^16, 13^15, 14^11, 15^10, 16^7, 17^7, 18^10, 19^6, 20^8, 21^3, 22^4, 23^3, 24^6, 25, 26^2, 27^2, 29^2, 30^4, 31, 34, 35, 36, 37, 39^2, 40, 43, 47, 51, 52, 55, 59, 60, 61^2, 64, 66, 81, 95, 217]
surviving nonsolo ucounts = 2[61, 217]
ids = [590, 224]

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1187 = CGGCTAGGTCTAGCCG-1

using 41 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[41]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1188 = CGGCTAGGTCTCATCC-1

using 49391 reads

====================================================================================

graph has 15317 edges initially, 148 edges after simplification

total ucounts = 894
nonsolo ucounts = 614[2^132, 3^91, 4^63, 5^49, 6^30, 7^24, 8^24, 9^21, 10^19, 11^16, 12^15, 13^13, 14^12, 15^8, 16^9, 17^9, 18^11, 19^5, 20^6, 21^4, 22^4, 23^2, 24^5, 25^2, 26^2, 28^2, 34^3, 35, 37^2, 45, 48, 56, 61, 64, 76, 82, 90, 115, 205, 559, 747, 927, 1307, 1350, 1378, 1417, 1613, 1904, 2220, 2270, 2314, 2324, 2474, 2619, 2636, 2661, 2926, 3883, 6556]
surviving nonsolo ucounts = 20[559, 747, 927, 1307, 1350, 1378, 1417, 1613, 1904, 2220, 2270, 2314, 2324, 2474, 2619, 2636, 2661, 2926, 3883, 6556]
ids = [487, 545, 474, 879, 477, 15, 526, 165, 541, 476, ...]

====================================================================================

UMI info for barcode CGGCTAGGTCTCATCC-1 contig 1 = AGAATGCTTA...
umi ACTACTCGCA = 2332 reads: +391 validated
umi AGCAGATAGG = 2471 reads: +391 validated
umi AGCGACCGGC = 2641 reads: +391 validated
umi AGGAATATCA = 1621 reads: +391 validated
umi AGTCTAACGA = 2644 reads: +391 validated
umi GATAGACTCG = 6671 reads: +224 -10XX +1 -81XX +1 -4X +1 -2X +1 -2X +1 -5XX +1 -2XX +1 -3XX +2 -3XX +1 -3XX +1 -1XX +40 invalidated
umi GATAGTTTCG = 2341 reads: -43X +1 -1X +1 -1XX +344 invalidated
umi GCCCGCAACA = 2945 reads: +391 validated
umi GGAGGTTGAT = 2230 reads: +391 validated
umi GGCCTTCTGG = 564 reads: +391 validated
umi GTCTAGCAAA = 1922 reads: +391 validated
umi TAGGGCTATA = 2681 reads: +391 validated
umi TTCGTAAGGC = 2292 reads: +391 validated

UMI info for barcode CGGCTAGGTCTCATCC-1 contig 2 = ACAGAAGTGG...
umi AAAGGGCTCG = 1375 reads: +400 validated
umi GGATAGCATG = 1354 reads: +400 validated
umi GTCACAACAC = 1438 reads: +400 validated
umi GTCTCTGTCT = 739 reads: +400 validated

GOOD CONTIGS

TIG 1[bases=490]
0-47 ==> 0-47 on |692|TRBV9|5'UTR| [len=47] (mis=0)
47-390 ==> 0-343 on |693|TRBV9|L-REGION+V-REGION| [len=343] (mis=2)
387-438 ==> 0-51 on |544|TRBJ2-2|J-REGION| [len=51] (mis=4)
438-490 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 12 umis using 2026 reads
cdr3 = CASSVRTGELFF at 374, score = 9 + 9
umis assigned: [109, 144, 153, 165, 188, 386, 389, 426, 476, 487] and 3 others
of which 13 are surviving nonsolos
reads assigned: 32591
start codons at 3, 47, 169, 255
confident = true

TIG 2[bases=511]
0-69 ==> 0-69 on |478|TRAV20|5'UTR| [len=69] (mis=0)
69-406 ==> 0-337 on |479|TRAV20|L-REGION+V-REGION| [len=337] (mis=0)
414-469 ==> 8-63 on |425|TRAJ39|J-REGION| [len=63] (mis=0)
469-511 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 4 umis using 259 reads
cdr3 = CAVQALGNAGNMLTF at 393, score = 8 + 9
umis assigned: [15, 477, 526, 545]
of which 4 are surviving nonsolos
reads assigned: 4813
start codons at 69, 78, 415, 426, 456
confident = true

REJECT CONTIGS

TIG 1[bases=575]
0-111 ==> 0-111 on |494|TRAV29/DV5|5'UTR| [len=111] (mis=0)
111-469 ==> 0-358 on |495|TRAV29/DV5|L-REGION+V-REGION| [len=358] (mis=5)
467-533 ==> 0-66 on |429|TRAJ42|J-REGION| [len=66] (mis=4)
533-575 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [474, 510, 879]
of which 3 are surviving nonsolos
reads assigned: 6040
start codons at 2, 9, 30, 111, 117, 184, 187, 273, 290, 358, 364, 473
confident = false
frameshifted full length stopped transcript of length 575
did not find CDR3
now this is a cell
paired!

CCTGAAGACTCAGCCACTTATCTCTGTGCTGTGCAGGCCCTCGGGAATGCAGGCAACATGCTCACCTTTGGAGGGGGAACAAGGTTAATGGTCAAACCCC <==> AGCTCTCTGGAGCTGGGGGACTCAGCTTTGTATTTCTGTGCCAGCAGCGTGCGAACCGGGGAGCTGTTTTTTGGAGAAGGCTCTAGGCTGACCGTACTGG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1198 = CGGCTAGGTGTCCTCT-1

using 55 reads

====================================================================================

graph has 60 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 5[2, 5^2, 17, 23]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1201 = CGGCTAGGTTACGCGC-1

using 71 reads

====================================================================================

graph has 46 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[71]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1202 = CGGCTAGGTTACGTCA-1

using 44 reads

====================================================================================

graph has 18 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[44]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1210 = CGGCTAGGTTGGGACA-1

using 48 reads

====================================================================================

graph has 10 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[48]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1218 = CGGCTAGTCAGCACAT-1

using 48 reads

====================================================================================

graph has 44 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2^2, 20, 22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1221 = CGGCTAGTCATCGCTC-1

using 839 reads

====================================================================================

graph has 930 edges initially, 14 edges after simplification

total ucounts = 180
nonsolo ucounts = 103[2^35, 3^13, 4^13, 5^8, 6^6, 7^4, 8^2, 9^3, 11^2, 12, 13, 14^2, 16^2, 18^2, 19, 22, 23, 26, 27, 32, 38, 55, 69]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1224 = CGGCTAGTCCAAACTG-1

using 23 reads

====================================================================================

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[23]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1225 = CGGCTAGTCCAAGTAC-1

using 36 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[35]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1241 = CGGCTAGTCGTCGTTC-1

using 29 reads

====================================================================================

graph has 8 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[29]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1244 = CGGCTAGTCTACCAGA-1

using 146 reads

====================================================================================

graph has 88 edges initially, 4 edges after simplification

total ucounts = 7
nonsolo ucounts = 7[3^2, 7, 9, 19, 44, 61]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1245 = CGGCTAGTCTAGAGTC-1

using 277 reads

====================================================================================

graph has 398 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[277]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1251 = CGGCTAGTCTCGCATC-1

using 22 reads

====================================================================================

graph has 28 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1256 = CGGCTAGTCTTCAACT-1

using 41019 reads

====================================================================================

graph has 16207 edges initially, 200 edges after simplification

total ucounts = 1298
nonsolo ucounts = 936[2^187, 3^109, 4^108, 5^74, 6^64, 7^57, 8^48, 9^46, 10^25, 11^28, 12^19, 13^23, 14^17, 15^14, 16^6, 17^9, 18^7, 19^13, 20, 21^2, 22^7, 23^4, 24^4, 25, 26^2, 27^2, 28^2, 29^2, 30^2, 31, 32, 33, 34, 35^2, 36^3, 38, 40, 42, 46, 47, 50, 51^2, 52, 56, 57, 60, 72, 76, 77, 96, 97, 230, 266, 345, 375, 401, 412, 526, 564, 577, 584, 588, 594, 659, 661^2, 758, 760, 785, 827, 911, 917, 964, 1849, 3280, 3513, 4828, 6558]
surviving nonsolo ucounts = 27[77, 96, 230, 375, 401, 412, 526, 564, 577, 584, 588, 594, 659, 661^2, 758, 760, 785, 827, 911, 917, 964, 1849, 3280, 3513, 4828, 6558]
ids = [889, 1294, 746, 994, 544, 128, 87, 532, 232, 654, ...]

====================================================================================

UMI info for barcode CGGCTAGTCTTCAACT-1 contig 1 = CCGGTGTCGG...
umi ACCGTTGGGG = 407 reads: +397 validated
umi CGATAGTCTT = 643 reads: +397 validated
umi CGGGGCAAAC = 389 reads: +397 validated
umi GGCAAGTCTC = 914 reads: +397 validated
umi GGTAACGACG = 651 reads: +397 validated
umi GTGTTGGCCG = 76 reads: +341 -42 +14 non-validated
umi TTTTGTCCGA = 95 reads: +344 -41 +12 non-validated

UMI info for barcode CGGCTAGTCTTCAACT-1 contig 2 = GTCCTGTCTC...
umi AACCTGTTCT = 660 reads: +378 -1 +6 -1 +20 non-validated
umi ACAACAACAT = 524 reads: +406 validated
umi AGGCATGGTC = 574 reads: +406 validated
umi AGTTGTTTCC = 792 reads: +406 validated
umi CATCTCTGCA = 916 reads: +406 validated
umi CCCGCTGTTG = 591 reads: +355 -1 +1 -1 +3 -1 +5 -1 +3 -25 +10 non-validated
umi CGCTCCTGAG = 573 reads: +389 -1 +16 non-validated
umi CTACATGCCT = 592 reads: +406 validated
umi CTGGCATTCT = 970 reads: +406 validated
umi GAGCCACATA = 828 reads: +406 validated
umi GCATACACCT = 210 reads: -365 +41 non-validated
umi GCTGGTTATA = 772 reads: +406 validated
umi GGGATACTAC = 762 reads: +406 validated
umi TATCGTCGGG = 361 reads: -327 +1 -16X +1 -2X +1 -4X +1 -5XX +48 invalidated

GOOD CONTIGS

TIG 1[bases=615]
0-176 ==> 0-176 on |496|TRAV3|5'UTR| [len=176] (mis=1)
176-510 ==> 0-334 on |497|TRAV3|L-REGION+V-REGION| [len=343] (mis=0)
514-573 ==> 0-59 on |421|TRAJ35|J-REGION| [len=59] (mis=2)
573-615 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 4 umis using 50 reads
cdr3 = CAARRGFGNVLHC at 503, score = 8 + 6
umis assigned: [128, 514, 544, 812, 837, 889, 1294]
of which 7 are surviving nonsolos
reads assigned: 3112
start codons at 176, 197, 206, 298, 339, 414, 528
confident = true

TIG 2[bases=641]
0-183 ==> 25-208 on |589|TRBV19|5'UTR| [len=208] (mis=0)
183-518 ==> 0-335 on |590|TRBV19|L-REGION+V-REGION| [len=344] (mis=0)
539-589 ==> 0-50 on |543|TRBJ2-1|J-REGION| [len=50] (mis=2)
589-641 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 8 umis using 242 reads
cdr3 = CASSGRGFLATYNEQFF at 510, score = 6 + 8
umis assigned: [31, 87, 232, 261, 410, 454, 532, 579, 636, 715] and 4 others
of which 14 are surviving nonsolos
reads assigned: 8925
start codons at 183, 241, 292, 328, 333, 397, 547
confident = true

REJECT CONTIGS

TIG 1[bases=414]
0-307 ==> 5693-6000 on segment before TRBD1 exon 1 [len=6000] (mis=0)
314-362 ==> 0-48 on |536|TRBJ1-1|J-REGION| [len=48] (mis=5)
362-414 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
umis assigned: [131, 246, 366, 794, 896, 1038]
of which 5 are surviving nonsolos
reads assigned: 19709
start codons at 8, 184, 194, 268
confident = false
did not find CDR3

TIG 2[bases=475]
1-371 ==> 1022-1392 on segment before TRAJ6 exon 1 [len=1392] (mis=0)
371-433 ==> 0-62 on |446|TRAJ6|J-REGION| [len=62] (mis=0)
433-475 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [654]
of which 1 are surviving nonsolos
reads assigned: 576
start codons at 49, 105, 135, 293, 308, 335
confident = false
did not find CDR3
now this is a cell
paired!

GCCCTTGTGAGCGACTCCGCTTTGTACTTCTGTGCTGCTAGGAGGGGCTTTGGGAATGTGCTGCATTGCGGGTCCGGCACTCAAGTGATTGTTTTACCAC <==> AACCCGACAGCTTTCTATCTCTGTGCCAGCTCAGGCAGGGGTTTTTTAGCTACCTACAATGAGCAGTTCTTCGGGCCAGGGACACGGCTCACCGTGCTAG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1265 = CGGGTCAAGAGAGCTC-1

using 48 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[47]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1266 = CGGGTCAAGAGCCCAA-1

using 51 reads

====================================================================================

graph has 26 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[51]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1269 = CGGGTCAAGATGGGTC-1

using 34 reads

====================================================================================

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[34]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1277 = CGGGTCAAGCTCTCGG-1

using 34 reads

====================================================================================

graph has 20 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[33]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1280 = CGGGTCAAGGACGAAA-1

using 61 reads

====================================================================================

graph has 82 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 6[2^2, 4, 9, 14, 28]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1282 = CGGGTCAAGGAGTCTG-1

using 56 reads

====================================================================================

graph has 54 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[3^2, 50]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1284 = CGGGTCAAGGCAGTCA-1

using 48 reads

====================================================================================

graph has 42 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[48]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1295 = CGGGTCAAGTGAAGAG-1

using 3098 reads

====================================================================================

graph has 2932 edges initially, 76 edges after simplification

total ucounts = 410
nonsolo ucounts = 297[2^49, 3^32, 4^27, 5^18, 6^20, 7^16, 8^16, 9^15, 10^12, 11^13, 12^8, 13^8, 14^7, 15^3, 16^5, 17^6, 18^2, 19^2, 20^2, 21, 22^6, 23^5, 24^4, 25^2, 26, 27, 28^3, 29, 30, 39, 40, 42^2, 44, 49, 54, 56, 64^2, 92]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1297 = CGGGTCAAGTGGAGAA-1

using 45 reads

====================================================================================

graph has 12 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[45]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1300 = CGGGTCAAGTTCGATC-1

using 22 reads

====================================================================================

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[22]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1309 = CGGGTCACAACACCTA-1

using 11557 reads

====================================================================================

graph has 5600 edges initially, 96 edges after simplification

total ucounts = 414
nonsolo ucounts = 269[2^39, 3^30, 4^27, 5^27, 6^16, 7^17, 8^10, 9^15, 10^10, 11^3, 12^10, 13^4, 14^5, 15^6, 16^5, 17^6, 18^6, 19^2, 21^4, 22^3, 24^2, 25^2, 27, 28^4, 34, 47, 53, 100, 185, 206, 365, 382, 616, 998, 1000, 1147, 1352, 1451, 1455]
surviving nonsolo ucounts = 10[185, 206, 365, 382, 998, 1000, 1147, 1352, 1451, 1455]
ids = [160, 144, 3, 182, 96, 266, 333, 43, 291, 32]

====================================================================================

UMI info for barcode CGGGTCACAACACCTA-1 contig 1 = AGATTTGCAG...
umi CATCAACTTT = 198 reads: +126 -2XX +1 -1XX +2 -2XX +284 invalidated
umi CCTTAATGCG = 385 reads: +418 validated

UMI info for barcode CGGGTCACAACACCTA-1 contig 2 = AGCTGTGAGG...
umi AAACGCGGGG = 365 reads: +409 validated
umi ACATGGCTGA = 1465 reads: +409 validated
umi ACGAGACTGA = 1350 reads: +409 validated
umi ATGAGAGGCG = 968 reads: +409 validated
umi CCATTTTCAT = 188 reads: +409 validated
umi GCACCCGCCT = 981 reads: +409 validated
umi GCTGCACTCC = 201 reads: +51 -3XX +1 -5XX +257 -1 +4 -25 +23 -1 +3 -1 +28 -6 invalidated
umi GGCCGCTTAT = 1459 reads: +409 validated
umi TACTTTATTG = 1147 reads: +409 validated

GOOD CONTIGS

TIG 1[bases=514]
0-54 ==> 57-111 on |494|TRAV29/DV5|5'UTR| [len=111] (mis=0)
54-412 ==> 0-358 on |495|TRAV29/DV5|L-REGION+V-REGION| [len=358] (mis=1)
423-472 ==> 8-57 on |405|TRAJ20|J-REGION| [len=57] (mis=0)
472-514 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 2 umis using 20 reads
cdr3 = CAASHPRRDYKLSF at 399, score = 9 + 8
umis assigned: [144, 182]
of which 2 are surviving nonsolos
reads assigned: 562
start codons at 54, 60, 127, 130, 216, 233, 301, 307
confident = true

TIG 2[bases=542]
0-81 ==> 0-81 on |585|TRBV18|5'UTR| [len=81] (mis=0)
81-428 ==> 0-347 on |586|TRBV18|L-REGION+V-REGION| [len=347] (mis=1)
437-490 ==> 0-53 on |541|TRBJ1-6|J-REGION| [len=53] (mis=5)
490-542 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
junction support: 7 umis using 454 reads
cdr3 = CASSPLGQGRNNSPLHF at 411, score = 7 + 9
umis assigned: [3, 32, 43, 96, 160, 266, 281, 291, 333]
of which 8 are surviving nonsolos
reads assigned: 7957
start codons at 66, 81, 139, 150, 203, 213, 229, 273, 304, 315
confident = true
now this is a cell
paired!

CAGCCTGGAGACTCTGCAGTGTACTTCTGTGCAGCAAGCCACCCTAGGAGGGACTACAAGCTCAGCTTTGGAGCCGGAACCACAGTAACTGTAAGAGCAA <==> GGAGATTCGGCAGCTTATTTCTGTGCCAGCTCACCACTCGGCCAGGGACGGAATAATTCACCCCTCCACTTTGGGAACGGGACCAGGCTCACTGTGACAG

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1310 = CGGGTCACAACTTGAC-1

using 205 reads

====================================================================================

graph has 234 edges initially, 6 edges after simplification

total ucounts = 13
nonsolo ucounts = 12[3^5, 10, 19^2, 29, 33, 38, 41]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1312 = CGGGTCACAAGCTGTT-1

using 29 reads

====================================================================================

graph has 32 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[28]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1313 = CGGGTCACAAGGTGTG-1

using 58 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[58]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1314 = CGGGTCACAAGTTGTC-1

using 10402 reads

====================================================================================

graph has 6555 edges initially, 102 edges after simplification

total ucounts = 804
nonsolo ucounts = 596[2^106, 3^79, 4^62, 5^46, 6^43, 7^34, 8^35, 9^26, 10^20, 11^13, 12^16, 13^13, 14^19, 15^18, 16^10, 17^7, 18^6, 19^3, 20^6, 21^3, 22^3, 23^3, 24, 25^3, 26^2, 27^4, 28^2, 29, 31, 33, 34, 36, 37^2, 38, 39, 40, 61, 77, 5448]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1323 = CGGGTCACACATCCAA-1

using 36 reads

====================================================================================

graph has 30 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[36]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1326 = CGGGTCACACCCTATC-1

using 3595 reads

====================================================================================

graph has 3234 edges initially, 76 edges after simplification

total ucounts = 577
nonsolo ucounts = 408[2^87, 3^61, 4^40, 5^30, 6^23, 7^22, 8^20, 9^13, 10^14, 11^19, 12^8, 13^9, 14^5, 15^3, 16^6, 17^5, 18^3, 19^3, 20^2, 21^3, 22^3, 23, 24^5, 25, 26^2, 27^2, 29^3, 32^2, 33^2, 34, 35, 36, 38, 39, 40, 43, 67, 70, 77, 82]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1333 = CGGGTCACAGACAAAT-1

using 50 reads

====================================================================================

graph has 34 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2^2, 11, 33]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1337 = CGGGTCACAGCCTTTC-1

using 275 reads

====================================================================================

graph has 282 edges initially, 10 edges after simplification

total ucounts = 14
nonsolo ucounts = 11[4^2, 5^2, 15, 21, 31, 39, 44, 49, 55]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!

▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓▓

BARCODE 38.1338 = CGGGTCACAGCTGTAT-1

using 2235 reads

====================================================================================

graph has 400 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[2235]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!
sorting bam, mem = 0.14
running samtools sort -l 8G -o /scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/VDJ_T_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk38-ucc6a7a72e6/files/contig_bam_sorted.bam /scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/VDJ_T_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk38-ucc6a7a72e6/files/contig_bam.bam

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97.809 seconds used processing barcodes, peak mem = 0.31
