[stdout]

starting vdj_asm_asm, mem = 0.01
available mem = 830.08 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/chnk37-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/chnk37-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.chnk37.ucc6a7a72e6
n50_n50_rpu = 2159

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

BARCODE 37.0 = CGCTATCCAAACTGCT-1

using 21598 reads

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

graph has 12232 edges initially, 220 edges after simplification

total ucounts = 1081
nonsolo ucounts = 832[2^116, 3^80, 4^75, 5^60, 6^59, 7^51, 8^44, 9^31, 10^31, 11^26, 12^26, 13^32, 14^19, 15^16, 16^15, 17^8, 18^17, 19^15, 20^6, 21^6, 22^11, 23^9, 24^9, 25^9, 26^2, 27, 28^3, 29^4, 30^4, 31^6, 32^4, 33^3, 34^2, 35, 37, 39, 41^3, 43^2, 45^2, 48, 49, 51, 52, 54, 56, 58, 59, 60, 65, 105, 265, 355, 377, 457, 1015, 1252, 1291, 1386, 1721, 2105, 2831]
surviving nonsolo ucounts = 11[265, 355, 377, 457, 1015, 1252, 1291, 1386, 1721, 2105, 2831]
ids = [245, 420, 944, 932, 792, 260, 235, 1036, 612, 540, ...]

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

UMI info for barcode CGCTATCCAAACTGCT-1 contig 1 = GTCATCCCTC...
umi ATTCCGCTAC = 1290 reads: +397 validated
umi CAATAACCGT = 1264 reads: +397 validated
umi CGTACGTCGC = 361 reads: +397 validated
umi GACAGCCCTT = 2121 reads: +397 validated
umi GCGCCGCCCT = 1729 reads: +397 validated
umi TACAACGTTC = 1024 reads: +397 validated
umi TGCCATGACC = 379 reads: +397 validated
umi TTGCGTCGCT = 1391 reads: +397 validated

GOOD CONTIGS

TIG 1[bases=527]
0-78 ==> 0-78 on |597|TRBV20-1|5'UTR| [len=78] (mis=0)
78-413 ==> 0-335 on |598|TRBV20-1|L-REGION+V-REGION| [len=335] (mis=0)
425-475 ==> 0-50 on |538|TRBJ1-3|J-REGION| [len=50] (mis=3)
475-527 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
junction support: 7 umis using 567 reads
cdr3 = CSARDLYRDPGNTIYF at 399, score = 7 + 7
umis assigned: [235, 260, 420, 540, 612, 792, 944, 1036]
of which 8 are surviving nonsolos
reads assigned: 9380
start codons at 21, 78, 216, 252, 258, 271, 331
confident = true

REJECT CONTIGS

TIG 1[bases=454]
14-352 ==> 0-338 on |530|TRAV9-2|L-REGION+V-REGION| [len=338] (mis=2)
351-412 ==> 0-61 on |427|TRAJ40|J-REGION| [len=61] (mis=4)
412-454 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [245, 594, 932]
of which 3 are surviving nonsolos
reads assigned: 3465
start codons at 14, 89, 177, 231
confident = false
frameshifted full length transcript of length 454
did not find CDR3
now this is a cell
NOT paired!

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

BARCODE 37.1 = CGCTATCCAAATTGCC-1

using 106 reads

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

graph has 36 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[106]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.2 = CGCTATCCAACACCTA-1

using 67 reads

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

graph has 8 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[2, 65]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.4 = CGCTATCCAAGACACG-1

using 82 reads

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

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[82]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.5 = CGCTATCCAAGACGTG-1

using 48 reads

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

graph has 14 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.6 = CGCTATCCAAGCCATT-1

using 49 reads

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

graph has 24 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.7 = CGCTATCCAAGCCCAC-1

using 564 reads

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

graph has 326 edges initially, 8 edges after simplification

total ucounts = 23
nonsolo ucounts = 17[2^3, 7, 12^2, 19, 20, 28, 31, 39, 48, 49, 50, 61, 72, 104]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.8 = CGCTATCCAAGCGATG-1

using 93 reads

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

graph has 12 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.9 = CGCTATCCAAGGCTCC-1

using 62 reads

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

graph has 32 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.10 = CGCTATCCAAGGGTCA-1

using 51 reads

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

graph has 52 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.11 = CGCTATCCAAGTAGTA-1

using 26 reads

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

graph has 16 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.12 = CGCTATCCAATGAATG-1

using 39 reads

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

graph has 32 edges initially, 4 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[2, 16, 21]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.18 = CGCTATCCACCTTGTC-1

using 58 reads

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

graph has 20 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[57]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.21 = CGCTATCCACGAGGTA-1

using 25 reads

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

graph has 12 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.23 = CGCTATCCACGGACAA-1

using 39 reads

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

graph has 14 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.24 = CGCTATCCACGGTAGA-1

using 62 reads

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

graph has 64 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2^2, 6, 50]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.25 = CGCTATCCACGTAAGG-1

using 66 reads

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

graph has 24 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[66]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.28 = CGCTATCCAGATGGGT-1

using 93 reads

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

graph has 100 edges initially, 4 edges after simplification

total ucounts = 5
nonsolo ucounts = 4[2^2, 37, 51]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.31 = CGCTATCCAGTTCCCT-1

using 34 reads

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

graph has 30 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 4[5, 8^2, 12]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.43 = CGCTATCCATTCACTT-1

using 81 reads

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

graph has 56 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.45 = CGCTATCCATTTGCTT-1

using 19 reads

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

graph has 10 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.47 = CGCTATCGTAAGAGAG-1

using 364 reads

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

graph has 623 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 1[362]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.54 = CGCTATCGTACTTAGC-1

using 518 reads

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

graph has 350 edges initially, 22 edges after simplification

total ucounts = 20
nonsolo ucounts = 16[2, 10, 11, 14, 16, 18, 19, 20, 23, 24, 31, 38, 50, 66, 80, 92]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.55 = CGCTATCGTATAAACG-1

using 40 reads

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

graph has 48 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 7[2^3, 3, 4, 8, 17]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.56 = CGCTATCGTATATGAG-1

using 105 reads

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

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[105]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.57 = CGCTATCGTATGCTTG-1

using 57 reads

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

graph has 148 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 5[2^2, 4, 13, 34]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.59 = CGCTATCGTCAACATC-1

using 127 reads

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

graph has 34 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[127]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.69 = CGCTATCGTCTCTTAT-1

using 47 reads

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

graph has 22 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.70 = CGCTATCGTCTGATCA-1

using 700 reads

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

graph has 318 edges initially, 18 edges after simplification

total ucounts = 36
nonsolo ucounts = 26[2, 3^2, 4^2, 5, 6, 8^2, 9^3, 12, 19, 20, 21, 22, 26, 27, 29, 38, 46, 75, 80, 87, 117]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.72 = CGCTATCGTGATGTGG-1

using 216 reads

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

graph has 170 edges initially, 8 edges after simplification

total ucounts = 16
nonsolo ucounts = 12[2^2, 3, 7, 8, 12, 13, 19, 22, 32, 35, 57]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.78 = CGCTATCGTGGTCTCG-1

using 36 reads

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

graph has 12 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 1[34]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.79 = CGCTATCGTGTAAGTA-1

using 244 reads

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

graph has 148 edges initially, 10 edges after simplification

total ucounts = 16
nonsolo ucounts = 10[2, 3, 7, 13, 14, 16, 21, 22, 67, 73]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.80 = CGCTATCGTTAGGGTG-1

using 1595 reads

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

graph has 420 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 5[2, 3^2, 8, 1577]
surviving nonsolo ucounts = 1[1577]
ids = [3]

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

REJECT CONTIGS

TIG 1[bases=391]
5-283 ==> 69-347 on |688|TRBV7-9|L-REGION+V-REGION| [len=347] (mis=2)
292-339 ==> 0-47 on |550|TRBJ2-7|J-REGION| [len=47] (mis=5)
339-391 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
cdr3 = CASSLDGSSSVGQYF at 266, score = 7 + 7
umis assigned: [3]
of which 1 are surviving nonsolos
reads assigned: 1562
start codons at 45, 144, 257
confident = false
not full
VJ delta = 16
not full
NOT paired!

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

BARCODE 37.82 = CGCTATCGTTATCGGT-1

using 50 reads

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

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[50]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.83 = CGCTATCGTTCCATGA-1

using 68 reads

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

graph has 44 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.90 = CGCTATCTCAATCTCT-1

using 102 reads

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

graph has 78 edges initially, 2 edges after simplification

total ucounts = 11
nonsolo ucounts = 8[2^2, 6, 9, 15, 17, 20, 28]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.91 = CGCTATCTCACCCGAG-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 37.93 = CGCTATCTCACGGTTA-1

using 31 reads

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

graph has 32 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.96 = CGCTATCTCATGTCCC-1

using 28 reads

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

graph has 22 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.97 = CGCTATCTCATGTGGT-1

using 25 reads

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

graph has 36 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.99 = CGCTATCTCATTTGGG-1

using 75 reads

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

graph has 32 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[75]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.101 = CGCTATCTCCAACCAA-1

using 27 reads

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

graph has 18 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.103 = CGCTATCTCCACTGGG-1

using 48 reads

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

graph has 42 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[2, 4, 42]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.105 = CGCTATCTCCCAACGG-1

using 10592 reads

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

graph has 6696 edges initially, 126 edges after simplification

total ucounts = 757
nonsolo ucounts = 533[2^97, 3^60, 4^50, 5^42, 6^28, 7^33, 8^21, 9^26, 10^23, 11^16, 12^17, 13^9, 14^11, 15^8, 16^5, 17^8, 18^9, 19^5, 20^3, 21^3, 22^6, 23^6, 24^3, 25^5, 26^2, 27^3, 28, 29^2, 30^3, 31^4, 32^2, 34^3, 35, 36^5, 37, 38, 40, 45, 49, 53, 54, 60, 62, 65, 101, 109, 5192]
surviving nonsolo ucounts = 1[5192]
ids = [713]

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

REJECT CONTIGS

TIG 1[bases=355]
3-102 ==> 5-104 on segment before TRBJ2-3 exon 1 [len=104] (mis=0)
102-151 ==> 0-49 on |546|TRBJ2-3|J-REGION| [len=49] (mis=0)
151-253 ==> 0-102 on segment before TRBJ2-4 exon 1 [len=102] (mis=0)
303-355 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [713]
of which 1 are surviving nonsolos
reads assigned: 5137
start codons at 12
confident = false
did not find CDR3
NOT paired!

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

BARCODE 37.106 = CGCTATCTCCCAAGAT-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 37.112 = CGCTATCTCGAGGTAG-1

using 42 reads

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

graph has 28 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 2[4, 36]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.113 = CGCTATCTCGGTGTTA-1

using 119 reads

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

graph has 58 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[119]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.114 = CGCTATCTCGTAGGTT-1

using 247 reads

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

graph has 232 edges initially, 6 edges after simplification

total ucounts = 11
nonsolo ucounts = 11[2, 3^2, 5^2, 13, 16, 26, 27, 66, 81]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.116 = CGCTATCTCTAACCGA-1

using 48 reads

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

graph has 30 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.118 = CGCTATCTCTAACTTC-1

using 35 reads

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

graph has 14 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[35]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.120 = CGCTATCTCTACTATC-1

using 80 reads

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

graph has 48 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[5, 75]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.122 = CGCTATCTCTATCCTA-1

using 14274 reads

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

graph has 13009 edges initially, 458 edges after simplification

total ucounts = 1710
nonsolo ucounts = 1321[2^192, 3^155, 4^112, 5^103, 6^84, 7^67, 8^54, 9^57, 10^36, 11^36, 12^37, 13^40, 14^35, 15^39, 16^19, 17^19, 18^29, 19^18, 20^15, 21^13, 22^22, 23^13, 24^13, 25^13, 26^11, 27^10, 28^8, 29^8, 30^9, 31^8, 32^3, 33^4, 34, 35^5, 37^2, 38^2, 39, 40^3, 41, 42^3, 43^2, 44, 45, 46, 47^3, 48, 56, 59, 62, 63, 66, 68, 69, 74, 86, 94, 108, 216]
surviving nonsolo ucounts = 1[2]
ids = [1319]

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

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

BARCODE 37.123 = CGCTATCTCTATGTGG-1

using 71 reads

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

graph has 48 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[71]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.126 = CGCTATCTCTCACATT-1

using 36 reads

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

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[36]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.128 = CGCTATCTCTCGTTTA-1

using 88 reads

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

graph has 20 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.131 = CGCTATCTCTGACCTC-1

using 22114 reads

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

graph has 15169 edges initially, 359 edges after simplification

total ucounts = 2089
nonsolo ucounts = 1532[2^253, 3^192, 4^156, 5^113, 6^83, 7^91, 8^70, 9^59, 10^63, 11^75, 12^36, 13^42, 14^31, 15^42, 16^35, 17^24, 18^23, 19^17, 20^11, 21^13, 22^12, 23^3, 24^4, 25^7, 26^6, 27^6, 28^6, 29^2, 30^3, 31^4, 32, 33^6, 34, 35, 36, 37^3, 38^2, 40^2, 42, 44, 46, 47^2, 48, 49^3, 51^3, 52, 53, 54^2, 55, 57^2, 59, 63, 67, 68, 75, 79, 80, 83, 85, 86, 90, 94, 100, 7416]
surviving nonsolo ucounts = 3[3, 100, 7416]
ids = [1097, 556, 1785]

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

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

BARCODE 37.132 = CGCTATCTCTGATACG-1

using 30 reads

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

graph has 20 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.135 = CGCTATCTCTGTTTGT-1

using 87 reads

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

graph has 60 edges initially, 2 edges after simplification

total ucounts = 12
nonsolo ucounts = 9[2^2, 3^2, 4^2, 5, 7, 54]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.137 = CGCTATCTCTTCATGT-1

using 258 reads

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

graph has 202 edges initially, 12 edges after simplification

total ucounts = 21
nonsolo ucounts = 16[2^5, 3, 4, 6, 9, 15, 16, 29, 30, 36, 46, 49]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.138 = CGCTATCTCTTCCTTC-1

using 71 reads

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

graph has 2 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[71]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.146 = CGCTGGAAGACTGTAA-1

using 29 reads

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

graph has 18 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.147 = CGCTGGAAGACTTTCG-1

using 35928 reads

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

graph has 13859 edges initially, 261 edges after simplification

total ucounts = 1488
nonsolo ucounts = 1084[2^177, 3^151, 4^107, 5^82, 6^87, 7^78, 8^58, 9^55, 10^24, 11^40, 12^27, 13^23, 14^20, 15^18, 16^20, 17^8, 18^14, 19^7, 20^9, 21^6, 22^9, 23^7, 24^5, 25^4, 26^4, 27^3, 28^3, 31^2, 32, 35^3, 37, 39^2, 40, 41, 42, 43, 44, 46^2, 47, 48, 50^2, 55, 57, 67, 70, 79^2, 84, 96, 97, 145, 169, 265, 1313, 2114, 3905, 4351, 5993, 8253]
surviving nonsolo ucounts = 7[169, 265, 2114, 3905, 4351, 5993, 8253]
ids = [3, 1343, 1366, 1081, 1354, 776, 1105]

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

REJECT CONTIGS

TIG 1[bases=390]
25-44 ==> 83-102 on segment before TRBJ2-4 exon 1 [len=102] (mis=0)
44-94 ==> 0-50 on |547|TRBJ2-4|J-REGION| [len=50] (mis=0)
94-165 ==> 0-71 on segment before TRBJ2-5 exon 1 [len=71] (mis=0)
213-285 ==> 0-72 on segment before TRBJ2-6 exon 1 [len=72] (mis=0)
338-390 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [3, 776, 1081, 1366]
of which 4 are surviving nonsolos
reads assigned: 11686
start codons at 
confident = false
did not find CDR3

TIG 2[bases=362]
5-260 ==> 2971-3226 on segment before TRBJ2-1 exon 1 [len=3226] (mis=0)
260-310 ==> 0-50 on |543|TRBJ2-1|J-REGION| [len=50] (mis=0)
310-362 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [1354]
of which 1 are surviving nonsolos
reads assigned: 4293
start codons at 42, 119, 268
confident = false
did not find CDR3
NOT paired!

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

BARCODE 37.151 = CGCTGGAAGATATACG-1

using 21 reads

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

graph has 10 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[20]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.152 = CGCTGGAAGATGTCGG-1

using 90 reads

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

graph has 82 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.156 = CGCTGGAAGCACACAG-1

using 42 reads

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

graph has 42 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 7[2^3, 3^2, 6, 22]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.160 = CGCTGGAAGCAGCCTC-1

using 1232 reads

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

graph has 532 edges initially, 4 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2, 3, 32, 1193]
surviving nonsolo ucounts = 1[1193]
ids = [3]

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

UMI info for barcode CGCTGGAAGCAGCCTC-1 contig 1 = ATTCCAGCCT...
umi CGAAACCGTT = 1185 reads: +394 validated

GOOD CONTIGS

TIG 1[bases=561]
0-115 ==> 93-208 on |589|TRBV19|5'UTR| [len=208] (mis=0)
115-459 ==> 0-344 on |590|TRBV19|L-REGION+V-REGION| [len=344] (mis=4)
462-509 ==> 0-47 on |550|TRBJ2-7|J-REGION| [len=47] (mis=5)
509-561 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 1 umis using 54 reads
cdr3 = CASSSGLGNEQYF at 442, score = 6 + 8
umis assigned: [3]
of which 1 are surviving nonsolos
reads assigned: 1163
start codons at 115, 173, 224, 260, 265, 329
confident = false
NOT paired!

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

BARCODE 37.165 = CGCTGGAAGCGTGTCC-1

using 27 reads

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

graph has 20 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.168 = CGCTGGAAGCTCCTTC-1

using 38 reads

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

graph has 32 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.173 = CGCTGGAAGGCAAAGA-1

using 71 reads

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

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[71]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.181 = CGCTGGAAGTACGTAA-1

using 58 reads

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

graph has 94 edges initially, 4 edges after simplification

total ucounts = 15
nonsolo ucounts = 8[2^2, 3, 4, 5, 8^2, 19]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.182 = CGCTGGAAGTCCAGGA-1

using 65 reads

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

graph has 50 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 2[16, 46]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.184 = CGCTGGAAGTGACATA-1

using 39 reads

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

graph has 56 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 4[2^2, 3, 28]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.189 = CGCTGGAAGTGTTGAA-1

using 211 reads

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

graph has 272 edges initially, 4 edges after simplification

total ucounts = 42
nonsolo ucounts = 27[2^5, 3^5, 4^3, 5^3, 7, 9^2, 10, 11, 12^2, 13, 18, 19, 24]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.193 = CGCTGGACAAAGCAAT-1

using 67 reads

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

graph has 76 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 6[4, 8^2, 9, 15, 22]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.196 = CGCTGGACAAGAAAGG-1

using 29 reads

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

graph has 26 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.197 = CGCTGGACAAGACACG-1

using 29 reads

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

graph has 24 edges initially, 2 edges after simplification

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

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

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

BARCODE 37.200 = CGCTGGACAAGTCTAC-1

using 23 reads

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

graph has 26 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[2, 4, 17]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.203 = CGCTGGACAATCTACG-1

using 14538 reads

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

graph has 8317 edges initially, 160 edges after simplification

total ucounts = 1036
nonsolo ucounts = 747[2^149, 3^99, 4^82, 5^62, 6^56, 7^42, 8^31, 9^28, 10^26, 11^23, 12^16, 13^14, 14^11, 15^8, 16^13, 17^12, 18^6, 19^9, 20^3, 21^3, 22^3, 23^2, 24^2, 25^2, 26^2, 27^4, 28^4, 29, 30, 31, 32^2, 33, 34^2, 36^2, 37, 38^2, 39, 40, 42^2, 43^3, 46, 47, 48, 53, 56, 73, 123, 344, 582, 755, 805, 808, 820, 1665, 2472]
surviving nonsolo ucounts = 9[123, 344, 582, 755, 805, 808, 820, 1665, 2472]
ids = [669, 178, 1026, 751, 230, 567, 54, 984, 427]

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

UMI info for barcode CGCTGGACAATCTACG-1 contig 1 = TTCAGCTCTG...
umi AATAGCGGCT = 813 reads: +395 -5 non-validated
umi ATCTCATACA = 782 reads: +353 -47 non-validated
umi GAGTCTAAAC = 793 reads: +400 validated
umi GGTATGCACC = 116 reads: +265 -2 +4 -1X +3 -2 +61 -62 invalidated
umi TTTTATGGGG = 543 reads: +309 -91 non-validated

UMI info for barcode CGCTGGACAATCTACG-1 contig 2 = TGGGGCCTTT...
umi AGGTGAAGGG = 338 reads: +397 validated
umi CGGTGTTCCA = 2484 reads: +397 validated
umi TAACATCAGG = 754 reads: +397 validated
umi TTCGGGGTAT = 1665 reads: +397 validated

GOOD CONTIGS

TIG 1[bases=612]
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=3)
546-558 ==> 0-12 on |535|TRBD1|D-REGION| [len=12] (mis=2)
560-601 ==> 6-47 on |550|TRBJ2-7|J-REGION| [len=47] (mis=0)
junction support: 1 umis using 9 reads
cdr3 = CASSRDGTGVREQYF at 528, score = 8 + 8
umis assigned: [54, 230, 567, 669, 1026]
of which 5 are surviving nonsolos
reads assigned: 2995
start codons at 67, 201, 323, 421, 487
confident = true

TIG 2[bases=610]
171-511 ==> 0-340 on |503|TRAV36/DV7|L-REGION+V-REGION| [len=340] (mis=3)
512-568 ==> 0-56 on |436|TRAJ49|J-REGION| [len=56] (mis=0)
568-610 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 3 umis using 282 reads
cdr3 = CAVVLNTGNQFYF at 498, score = 7 + 7
umis assigned: [178, 427, 751, 984]
of which 4 are surviving nonsolos
reads assigned: 5143
start codons at 42, 93, 171, 174, 307, 335, 375
confident = true
now this is a cell
paired!

ACCCAGACCGGAGACTCGGCCATCTACCTCTGTGCTGTGGTCTTGAACACCGGTAACCAGTTCTATTTTGGGACAGGGACAAGTTTGACGGTCATTCCAA <==> GAGCTGGACGACTCGGCCCTGTATCTCTGTGCCAGCAGCCGGGACGGGACAGGGGTGCGCGAGCAGTACTTCGGGCCGGGCACCAGGCTCACGGTCACAG

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

BARCODE 37.204 = CGCTGGACAATGGACG-1

using 79 reads

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

graph has 56 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 4[2^2, 4, 66]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.205 = CGCTGGACAATGGAGC-1

using 70 reads

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

graph has 70 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 7[2^3, 5, 8, 13, 38]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.206 = CGCTGGACAATGTAAG-1

using 8383 reads

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

graph has 7179 edges initially, 228 edges after simplification

total ucounts = 1174
nonsolo ucounts = 870[2^154, 3^107, 4^88, 5^90, 6^56, 7^36, 8^37, 9^31, 10^30, 11^28, 12^20, 13^24, 14^15, 15^12, 16^18, 17^18, 18^16, 19^2, 20^7, 21^6, 22^7, 23^5, 24^8, 25^2, 26^2, 27^4, 28^3, 29^3, 30^4, 31^5, 32^3, 33^2, 34^2, 35, 36, 38^2, 40^3, 42^3, 43^2, 49, 50, 57^3, 68, 75, 76, 78, 83, 88, 91, 94]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.208 = CGCTGGACACACTGCG-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 37.215 = CGCTGGACACGTGAGA-1

using 101 reads

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

graph has 84 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[101]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.218 = CGCTGGACACTTCTGC-1

using 22 reads

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

graph has 24 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[3, 6, 13]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 37.221 = CGCTGGACAGATGGGT-1

using 22334 reads

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

graph has 8481 edges initially, 68 edges after simplification

total ucounts = 498
nonsolo ucounts = 358[2^76, 3^44, 4^39, 5^23, 6^23, 7^23, 8^21, 9^16, 10^10, 11^10, 12^8, 13^7, 14^4, 15^7, 16^6, 17^4, 18^4, 19, 20^3, 21^2, 22, 23^3, 24^2, 25, 26^2, 28, 41, 45, 61, 67, 68, 95, 455, 890, 1150, 1306, 1317, 1320, 1360, 1432, 2244, 3879, 4139]
surviving nonsolo ucounts = 12[68, 455, 890, 1150, 1306, 1317, 1320, 1360, 1432, 2244, 3879, 4139]
ids = [126, 59, 207, 374, 386, 146, 302, 108, 435, 241, ...]

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

UMI info for barcode CGCTGGACAGATGGGT-1 contig 1 = GTTCCCCTAT...
umi AGAGACACTG = 465 reads: +403 validated
umi ATTTGAATGC = 1366 reads: +403 validated
umi CATCAGTTGC = 1308 reads: +403 validated
umi CTCCCTACCT = 2253 reads: +403 validated
umi GCGGTTAATT = 1306 reads: +403 validated
umi GTCTGTGGCT = 3917 reads: -125 +2 -2XX +274 invalidated
umi TACCCGGGGT = 1143 reads: +403 validated
umi TAGCAAGCAG = 1289 reads: +403 validated

UMI info for barcode CGCTGGACAGATGGGT-1 contig 2 = ACTATTTCTA...
umi CACCAACCGA = 65 reads: +307 -63 +15 non-validated
umi CGGGGGCGTA = 861 reads: +385 validated

GOOD CONTIGS

TIG 1[bases=512]
0-57 ==> 0-57 on |647|TRBV6-1|5'UTR| [len=57] (mis=0)
57-401 ==> 0-344 on |648|TRBV6-1|L-REGION+V-REGION| [len=344] (mis=1)
411-460 ==> 0-49 on |546|TRBJ2-3|J-REGION| [len=49] (mis=5)
460-512 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 7 umis using 784 reads
cdr3 = CASSEAGATAGDTQYF at 384, score = 9 + 8
umis assigned: [59, 108, 146, 241, 302, 344, 374, 386]
of which 8 are surviving nonsolos
reads assigned: 12764
start codons at 15, 57, 115, 168, 192, 207, 234, 298, 307
confident = true

TIG 2[bases=503]
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=1)
406-461 ==> 0-55 on |406|TRAJ21|J-REGION| [len=55] (mis=1)
461-503 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 1 umis using 24 reads
cdr3 = CAGCCNFNKFYF at 394, score = 6 + 7
umis assigned: [126, 207]
of which 2 are surviving nonsolos
reads assigned: 897
start codons at 58, 76, 94, 105, 109, 128, 142, 164, 377, 449
confident = true

REJECT CONTIGS

TIG 1[bases=477]
0-36 ==> 0-36 on |455|TRAV10|5'UTR| [len=36] (mis=0)
36-379 ==> 0-343 on |456|TRAV10|L-REGION+V-REGION| [len=343] (mis=6)
376-435 ==> 0-59 on |421|TRAJ35|J-REGION| [len=59] (mis=1)
435-477 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
umis assigned: [435]
of which 1 are surviving nonsolos
reads assigned: 1415
start codons at 36, 94, 164, 246, 298, 390
confident = false
frameshifted full length stopped transcript of length 477
did not find CDR3

TIG 2[bases=302]
4-94 ==> 5738-5828 on segment before TRBD1 exon 1 [len=6000] (mis=0)
199-250 ==> 0-51 on |539|TRBJ1-4|J-REGION| [len=51] (mis=0)
250-302 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
umis assigned: [437]
of which 1 are surviving nonsolos
reads assigned: 4052
start codons at 191, 205
confident = false
did not find CDR3
now this is a cell
paired!

GCCACCCAGACTACAGATGTAGGAACCTACTTCTGTGCAGGGTGTTGCAACTTCAACAAATTTTACTTTGGATCTGGGACCAAACTCAATGTAAAACCAA <==> CCCTCCCAGACATCTGTGTACTTCTGTGCCAGCAGTGAGGCAGGGGCAACTGCGGGAGATACGCAGTATTTTGGCCCAGGCACCCGGCTGACAGTGCTCG
sorting bam, mem = 0.08
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/chnk37-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/chnk37-ucc6a7a72e6/files/contig_bam.bam

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23.726 seconds used processing barcodes, peak mem = 0.24
