[stdout]

starting vdj_asm_asm, mem = 0.01
available mem = 828.89 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/chnk87-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/chnk87-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.chnk87.ucc6a7a72e6
n50_n50_rpu = 2159

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

BARCODE 87.0 = TGACGGCAGGAATGGA-1

using 11368 reads

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

graph has 4558 edges initially, 80 edges after simplification

total ucounts = 495
nonsolo ucounts = 306[2^61, 3^53, 4^24, 5^30, 6^19, 7^7, 8^12, 9^8, 10^7, 11^12, 12^7, 13^10, 14^8, 15^2, 16^2, 17^3, 18^10, 20^4, 21, 22, 23^2, 24^2, 25^2, 26, 27^2, 29^2, 30^2, 31^2, 34^2, 35, 37, 43, 53, 58, 85, 3074, 5519]
surviving nonsolo ucounts = 2[3074, 5519]
ids = [51, 109]

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

REJECT CONTIGS

TIG 1[bases=308]
12-83 ==> 0-71 on segment before TRBJ2-5 exon 1 [len=71] (mis=0)
83-131 ==> 0-48 on |548|TRBJ2-5|J-REGION| [len=48] (mis=0)
131-203 ==> 0-72 on segment before TRBJ2-6 exon 1 [len=72] (mis=0)
256-308 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [51, 109]
of which 2 are surviving nonsolos
reads assigned: 8218
start codons at 
confident = false
did not find CDR3
NOT paired!

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

BARCODE 87.2 = TGACGGCAGGATCGCA-1

using 18721 reads

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

graph has 5886 edges initially, 70 edges after simplification

total ucounts = 376
nonsolo ucounts = 265[2^58, 3^37, 4^25, 5^22, 6^14, 7^13, 8^12, 9^8, 10^4, 11^11, 12^3, 13^7, 14^5, 15, 16^2, 17^5, 18^4, 19, 20^4, 21, 24^3, 27^2, 28^4, 29^2, 33^2, 35, 36, 46, 65, 68, 71, 130, 166, 305, 1267, 1302, 1395, 1573, 1684, 8643]
surviving nonsolo ucounts = 8[166, 305, 1267, 1302, 1395, 1573, 1684, 8643]
ids = [170, 228, 282, 29, 198, 4, 194, 299]

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

UMI info for barcode TGACGGCAGGATCGCA-1 contig 1 = GCACAGACAC...
umi AAACGCTGTA = 1467 reads: -364 +1 -19XX +3 -2XX +1 -5XX +2 -1XX +2 invalidated
umi CGTTAGATGG = 138 reads: -388X +1 -2X +1 -1XX +2 -2XX +1 -1XX +1 invalidated
umi CTTGCACCGG = 1315 reads: -384X +3 -2XX +1 -5XX +2 -1XX +2 invalidated
umi GCTAGCCATT = 298 reads: +400 validated
umi TCAGATGTAT = 1249 reads: -256 +1 -2XX +141 invalidated
umi TCCCTTGCTT = 6767 reads: -378 +2 -1XX +3 -1XX +2 -1XX +1 -1XX +2 -1XX +2 -2XX +1 -1XX +1 invalidated

UMI info for barcode TGACGGCAGGATCGCA-1 contig 2 = GACTGTGATT...
umi CTTCATCTTC = 1683 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=485]
0-33 ==> 276-309 on |630|TRBV5-1|5'UTR| [len=309] (mis=0)
33-376 ==> 0-343 on |631|TRBV5-1|L-REGION+V-REGION| [len=343] (mis=0)
385-433 ==> 0-48 on |537|TRBJ1-2|J-REGION| [len=48] (mis=1)
433-485 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
junction support: 2 umis using 118 reads
cdr3 = CASSLAGQVNYGYTF at 360, score = 9 + 9
umis assigned: [4, 170, 198, 228, 282, 299]
of which 6 are surviving nonsolos
reads assigned: 11186
start codons at 33, 315, 319, 391
confident = true

TIG 2[bases=486]
0-56 ==> 0-56 on |529|TRAV9-2|5'UTR| [len=56] (mis=1)
56-394 ==> 0-338 on |530|TRAV9-2|L-REGION+V-REGION| [len=338] (mis=3)
387-444 ==> 0-57 on |416|TRAJ30|J-REGION| [len=57] (mis=2)
444-486 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
junction support: 1 umis using 109 reads
cdr3 = CALSRDDKIIF at 380, score = 9 + 8
umis assigned: [194]
of which 1 are surviving nonsolos
reads assigned: 1660
start codons at 15, 56, 131, 219, 273, 396
confident = true

REJECT CONTIGS

TIG 1[bases=530]
0-75 ==> 0-75 on |467|TRAV14/DV4|5'UTR| [len=75] (mis=3)
75-425 ==> 0-350 on |468|TRAV14/DV4|L-REGION+V-REGION| [len=350] (mis=7)
431-488 ==> 0-57 on |419|TRAJ33|J-REGION| [len=57] (mis=0)
488-530 ==> 0-42 on |393|TRAC|C-REGION| [len=422] (mis=0)
cdr3 = CAMRDS at 408, score = 7 + 4
umis assigned: [29]
of which 1 are surviving nonsolos
reads assigned: 1263
start codons at 75, 165, 208, 229, 267, 295, 307, 399, 414, 430
confident = false
frameshifted full length stopped transcript of length 530
VJ delta = -8
not full
not full
now this is a cell
paired!

GGCTCAGTTCAAGTGTCAGACTCAGCGGTGTACTTCTGTGCTCTGAGTAGAGATGACAAGATCATCTTTGGAAAAGGGACACGACTTCATATTCTCCCCA <==> GAGCTGGGGGACTCGGCCCTTTATCTTTGCGCCAGCAGCTTGGCCGGTCAGGTTAACTATGGCTACACCTTCGGTTCGGGGACCAGGTTAACCGTTGTAG

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

BARCODE 87.3 = TGACGGCAGGATGGTC-1

using 78 reads

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

graph has 58 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.4 = TGACGGCAGGCCCTTG-1

using 125 reads

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

graph has 144 edges initially, 4 edges after simplification

total ucounts = 7
nonsolo ucounts = 6[2^2, 4, 12, 33, 71]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.6 = TGACGGCAGGCTAGAC-1

using 73 reads

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

graph has 6 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.7 = TGACGGCAGGTGCTAG-1

using 74 reads

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

graph has 58 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 6[2^2, 3, 8, 10, 45]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.9 = TGACGGCAGTACGTAA-1

using 14805 reads

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

graph has 8023 edges initially, 210 edges after simplification

total ucounts = 866
nonsolo ucounts = 607[2^121, 3^57, 4^60, 5^37, 6^34, 7^30, 8^28, 9^17, 10^16, 11^21, 12^20, 13^10, 14^14, 15^14, 16^14, 17^16, 18^12, 19^5, 20^3, 21^8, 22^6, 23^2, 24^3, 25^2, 26^6, 27^6, 28, 29^3, 31, 32^2, 33^4, 36^4, 37, 40, 41, 42, 43, 46, 48, 49, 51, 53, 54^2, 55, 58^2, 63, 65, 66, 68, 70, 77, 79, 86, 104, 109^2, 110, 155, 1936, 5784]
surviving nonsolo ucounts = 2[1936, 5784]
ids = [767, 602]

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

REJECT CONTIGS

TIG 1[bases=337]
5-84 ==> 25-104 on segment before TRBJ2-3 exon 1 [len=104] (mis=0)
84-133 ==> 0-49 on |546|TRBJ2-3|J-REGION| [len=49] (mis=0)
133-235 ==> 0-102 on segment before TRBJ2-4 exon 1 [len=102] (mis=0)
285-337 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
umis assigned: [602, 767]
of which 2 are surviving nonsolos
reads assigned: 7576
start codons at 
confident = false
did not find CDR3
NOT paired!

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

BARCODE 87.14 = TGACGGCAGTCGAGTG-1

using 18 reads

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

graph has 16 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[18]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.16 = TGACGGCAGTGGACGT-1

using 34 reads

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

graph has 24 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 4[2^2, 3, 27]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.17 = TGACGGCCAAACTGCT-1

using 29 reads

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

graph has 44 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 5[2, 3, 4, 5, 13]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.19 = TGACGGCCAAATACAG-1

using 35 reads

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

graph has 10 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.23 = TGACGGCCAAGAAGAG-1

using 37 reads

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

graph has 12 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.26 = TGACGGCCAAGTAATG-1

using 66 reads

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

graph has 36 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.27 = TGACGGCCAAGTCATC-1

using 7 reads

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

graph has 2 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[7]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.30 = TGACGGCCAATGTAAG-1

using 16 reads

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

graph has 6 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[16]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.33 = TGACGGCCACATAACC-1

using 38 reads

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

graph has 40 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 4[2^2, 4, 27]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.35 = TGACGGCCACATTCGA-1

using 437 reads

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

graph has 361 edges initially, 14 edges after simplification

total ucounts = 22
nonsolo ucounts = 19[2^2, 3^2, 4, 6, 8, 13^2, 17, 18, 23, 25, 27, 34, 54, 58^2, 66]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.43 = TGACGGCCACTTCTGC-1

using 16 reads

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

graph has 6 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[16]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.44 = TGACGGCCAGACACTT-1

using 34 reads

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

graph has 26 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.49 = TGACGGCCAGGAATCG-1

using 55 reads

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

graph has 66 edges initially, 6 edges after simplification

total ucounts = 9
nonsolo ucounts = 6[2, 4^2, 5, 12, 25]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.50 = TGACGGCCAGGCGATA-1

using 49 reads

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

graph has 20 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.51 = TGACGGCCAGGCTGAA-1

using 452 reads

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

graph has 270 edges initially, 10 edges after simplification

total ucounts = 19
nonsolo ucounts = 16[2^2, 3, 4, 6, 10^2, 12, 14, 21, 27, 35, 53, 72, 77, 101]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.52 = TGACGGCCAGGTCCAC-1

using 42 reads

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

graph has 66 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 3[2, 3, 36]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.54 = TGACGGCCAGTCCTTC-1

using 18984 reads

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

graph has 7321 edges initially, 92 edges after simplification

total ucounts = 635
nonsolo ucounts = 437[2^93, 3^61, 4^38, 5^34, 6^22, 7^25, 8^14, 9^19, 10^9, 11^14, 12^9, 13^9, 14^12, 15^8, 16^7, 17^3, 18^5, 19^2, 20^3, 21^3, 22, 23^2, 24, 25, 26^2, 28^3, 29^2, 30^2, 31^6, 32, 33, 34^2, 35, 37, 39, 41^3, 43, 45, 48, 55, 58, 65, 74, 83, 90, 103, 274, 477, 526, 876, 1086, 3831, 7676]
surviving nonsolo ucounts = 5[477, 526, 1086, 3831, 7676]
ids = [391, 559, 352, 503, 110]

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

REJECT CONTIGS

TIG 1[bases=418]
4-23 ==> 203-222 on segment before TRBJ1-5 exon 1 [len=222] (mis=0)
23-73 ==> 0-50 on |540|TRBJ1-5|J-REGION| [len=50] (mis=0)
366-418 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
umis assigned: [110, 352, 391, 503, 559]
of which 5 are surviving nonsolos
reads assigned: 13301
start codons at 10, 13, 49, 74, 118, 179, 261, 277, 336
confident = false
did not find CDR3
NOT paired!

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

BARCODE 87.58 = TGACGGCCATGACATC-1

using 39 reads

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

graph has 52 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.62 = TGACGGCCATGGGACA-1

using 335 reads

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

graph has 228 edges initially, 12 edges after simplification

total ucounts = 13
nonsolo ucounts = 12[2, 4^4, 8, 17, 23, 53, 54, 73, 88]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.64 = TGACGGCCATTGGCGC-1

using 72 reads

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

graph has 42 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.65 = TGACGGCCATTGTGCA-1

using 69 reads

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

graph has 22 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[69]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.66 = TGACGGCCATTTCACT-1

using 43 reads

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

graph has 30 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.67 = TGACGGCGTAAACACA-1

using 56 reads

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

graph has 64 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.71 = TGACGGCGTAAGGGCT-1

using 84 reads

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

graph has 76 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 1[82]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.72 = TGACGGCGTAAGTGGC-1

using 27 reads

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

graph has 26 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[2, 3, 20]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.73 = TGACGGCGTACCGAGA-1

using 30 reads

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

graph has 14 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.75 = TGACGGCGTAGCGCAA-1

using 24 reads

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

graph has 12 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.77 = TGACGGCGTAGCTAAA-1

using 65 reads

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

graph has 84 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[2, 8, 11, 17, 23]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.78 = TGACGGCGTAGCTCCG-1

using 3528 reads

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

graph has 980 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[3, 3524]
surviving nonsolo ucounts = 1[3524]
ids = [2]

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

UMI info for barcode TGACGGCGTAGCTCCG-1 contig 1 = TGGGGCTTCA...
umi CCAACTTGAC = 3539 reads: +391 validated

GOOD CONTIGS

TIG 1[bases=461]
18-362 ==> 0-344 on |613|TRBV28|L-REGION+V-REGION| [len=344] (mis=1)
363-409 ==> 7-53 on |542|TRBJ1-6|J-REGION| [len=53] (mis=0)
409-461 ==> 0-52 on |531|TRBC1|C-REGION| [len=530] (mis=0)
junction support: 1 umis using 264 reads
cdr3 = CASSLGNSPLHF at 345, score = 6 + 9
umis assigned: [2]
of which 1 are surviving nonsolos
reads assigned: 3482
start codons at 18, 76, 140, 153, 160, 168, 223, 226, 234, 336, 385
confident = false
NOT paired!

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

BARCODE 87.80 = TGACGGCGTAGGACAC-1

using 1908 reads

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

graph has 370 edges initially, 4 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[4, 30, 1872]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.81 = TGACGGCGTATGAATG-1

using 56 reads

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

graph has 8 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.82 = TGACGGCGTATGGTTC-1

using 21 reads

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

graph has 16 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.88 = TGACGGCGTCGGCATC-1

using 91 reads

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

graph has 64 edges initially, 4 edges after simplification

total ucounts = 4
nonsolo ucounts = 3[12, 18, 60]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.89 = TGACGGCGTCTCTCGT-1

using 23 reads

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

graph has 10 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.94 = TGACGGCGTTATCGGT-1

using 41 reads

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

graph has 18 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.99 = TGACGGCGTTGACGTT-1

using 11 reads

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

graph has 8 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[11]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.102 = TGACGGCTCAATAAGG-1

using 69 reads

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

graph has 78 edges initially, 2 edges after simplification

total ucounts = 16
nonsolo ucounts = 10[2^3, 3, 4, 6, 7, 10, 13, 14]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.103 = TGACGGCTCACATGCA-1

using 4746 reads

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

graph has 4005 edges initially, 104 edges after simplification

total ucounts = 720
nonsolo ucounts = 489[2^91, 3^79, 4^36, 5^38, 6^35, 7^30, 8^18, 9^15, 10^18, 11^13, 12^13, 13^7, 14^10, 15^5, 16^8, 17^3, 18^7, 19^4, 20^3, 22^2, 23^3, 24^3, 25^3, 26^3, 27^6, 28^3, 29^3, 30^5, 31^2, 32^3, 33^2, 34^5, 35, 38, 39, 40, 41, 43, 44, 46, 51^2, 55, 57, 82]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.107 = TGACGGCTCACTATTC-1

using 34 reads

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

graph has 20 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[4, 30]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.110 = TGACGGCTCAGGCAAG-1

using 91 reads

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

graph has 20 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[91]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.111 = TGACGGCTCAGTCAGT-1

using 32 reads

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

graph has 34 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 6[2^3, 4^2, 18]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.119 = TGACGGCTCCTCAATT-1

using 16281 reads

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

graph has 7406 edges initially, 170 edges after simplification

total ucounts = 1029
nonsolo ucounts = 704[2^169, 3^81, 4^69, 5^54, 6^32, 7^28, 8^32, 9^27, 10^24, 11^24, 12^13, 13^14, 14^17, 15^11, 16^10, 17^13, 18^7, 19^3, 20^4, 21^5, 22^5, 23^6, 24, 25, 26^6, 27^3, 28^2, 29^2, 30^3, 31, 32, 33, 34^2, 38^3, 39, 40^2, 41, 45^3, 46, 47, 48, 49, 52^2, 55^2, 59^2, 60, 62, 63, 64^2, 71, 78, 82, 85, 94, 120, 384, 8888]
surviving nonsolo ucounts = 2[384, 8888]
ids = [327, 172]

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

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

BARCODE 87.121 = TGACGGCTCGCACTCT-1

using 30 reads

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

graph has 50 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 5[3, 4, 5, 6, 9]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.125 = TGACGGCTCGGCTACG-1

using 51 reads

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

graph has 66 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 7[3, 4^2, 5^2, 6, 24]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.131 = TGACGGCTCTCAACTT-1

using 20 reads

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

graph has 18 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 1[19]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.132 = TGACGGCTCTCGCTTG-1

using 65 reads

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

graph has 16 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.137 = TGACGGCTCTTGACGA-1

using 80 reads

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

graph has 80 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 5[2, 6, 8, 19, 45]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.145 = TGACTAGAGACTTTCG-1

using 45 reads

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

graph has 42 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[45]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.146 = TGACTAGAGAGACTAT-1

using 55 reads

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

graph has 18 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.147 = TGACTAGAGAGGACGG-1

using 35 reads

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

graph has 32 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 6[2^3, 3, 5, 17]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.150 = TGACTAGAGCACGCCT-1

using 17 reads

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

graph has 16 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.154 = TGACTAGAGCGAGAAA-1

using 90 reads

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

graph has 96 edges initially, 4 edges after simplification

total ucounts = 9
nonsolo ucounts = 7[2^2, 4, 9, 11, 28, 32]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.156 = TGACTAGAGCTAACAA-1

using 6522 reads

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

graph has 3987 edges initially, 186 edges after simplification

total ucounts = 418
nonsolo ucounts = 305[2^39, 3^31, 4^25, 5^12, 6^18, 7^15, 8^10, 9^16, 10^11, 11^9, 12^8, 13^9, 14^2, 15^5, 16^7, 17^3, 18^6, 19^3, 20^2, 21^4, 22^7, 23^4, 24^5, 25^3, 26^4, 27^3, 28^2, 29, 30^2, 32^2, 33^2, 34^3, 35, 37^4, 38^2, 39, 42, 43^2, 44, 45, 46^2, 49, 51, 53, 55, 56, 58, 59, 60, 61, 63, 64, 65, 67, 72, 85, 970, 1166]
surviving nonsolo ucounts = 2[970, 1166]
ids = [165, 47]

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

UMI info for barcode TGACTAGAGCTAACAA-1 contig 1 = AGAATGACGC...
umi ACTTGGTTGG = 1163 reads: +394 validated

GOOD CONTIGS

TIG 1[bases=526]
0-80 ==> 0-80 on |651|TRBV6-2|5'UTR| [len=80] (mis=0)
80-416 ==> 0-336 on |652|TRBV6-2|L-REGION+V-REGION| [len=344] (mis=0)
424-474 ==> 0-50 on |543|TRBJ2-1|J-REGION| [len=50] (mis=5)
474-526 ==> 0-52 on |534|TRBC2|C-REGION| [len=536] (mis=0)
junction support: 1 umis using 49 reads
cdr3 = CASQVQASDEQFF at 407, score = 9 + 8
umis assigned: [47]
of which 1 are surviving nonsolos
reads assigned: 1144
start codons at 3, 38, 80, 138, 191, 215, 222, 230, 257, 321, 330, 432
confident = false
NOT paired!

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

BARCODE 87.158 = TGACTAGAGCTCCTCT-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 87.161 = TGACTAGAGGAACTGC-1

using 115 reads

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

graph has 54 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[115]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.166 = TGACTAGAGGGAAACA-1

using 47 reads

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

graph has 10 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.168 = TGACTAGAGGTGATAT-1

using 21 reads

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

graph has 4 edges initially, 2 edges after simplification

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

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

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

BARCODE 87.169 = TGACTAGAGGTGCTTT-1

using 31 reads

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

graph has 28 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 2[4, 22]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 87.172 = TGACTAGAGTCATCCA-1

using 32 reads

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

graph has 65 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[32]
surviving nonsolo ucounts = 0[]
ids = []

====================================================================================
NOT paired!
sorting bam, mem = 0.07
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/chnk87-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/chnk87-ucc6a7a72e6/files/contig_bam.bam

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

14.129 seconds used processing barcodes, peak mem = 0.23
