[stdout]

starting vdj_asm_asm, mem = 0.01
available mem = 834.10 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_B_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk079-ucc6a7a72ce /scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/VDJ_B_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk079-ucc6a7a72ce/files /scratch/etanis/ST-118/multi/dimitri-multi/journal/SC_MULTI_CS.SC_MULTI_CORE.MULTI_GEM_WELL_PROCESSOR.VDJ_B_GEM_WELL_PROCESSOR.SC_VDJ_CONTIG_ASSEMBLER.ASSEMBLE_VDJ.fork0.chnk079.ucc6a7a72ce
n50_n50_rpu = 288

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

BARCODE 79.4 = GGGTTGCGTATTCGTG-1

using 254 reads

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

graph has 88 edges initially, 2 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[9, 245]
surviving nonsolo ucounts = 1[245]
ids = [0]

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

REJECT CONTIGS

TIG 1[bases=560]
0-51 ==> 8-59 on |200|IGHV5-51|5'UTR| [len=59] (mis=0)
0-51 ==> 4277-4328 on rc of segment before IGHVIII-51-1 exon 1 [len=4328] (mis=0)
8-98 ==> 5828-5918 on rc of segment after IGHV5-78 exon 1 [len=6000] (mis=10)
51-393 ==> 0-342 on |201|IGHV5-51|L-REGION+V-REGION| [len=351] (mis=18)
394-430 ==> 10-46 on |54|IGHJ4|J-REGION| [len=46] (mis=1)
430-560 ==> 0-130 on |40|IGHG1|C-REGION| [len=884] (mis=1)
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 229
start codons at 51, 225, 249, 384
confident = false
full length transcript of length 560
did not find CDR3
NOT paired!

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

BARCODE 79.13 = GGGTTGCGTCGGGTCT-1

using 28 reads

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

graph has 20 edges initially, 2 edges after simplification

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

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

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

BARCODE 79.21 = GGGTTGCGTCTGGAGA-1

using 32 reads

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

graph has 30 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 2[6, 22]
surviving nonsolo ucounts = 1[22]
ids = [5]

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

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

BARCODE 79.23 = GGGTTGCGTCTTGTCC-1

using 6873 reads

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

graph has 3923 edges initially, 34 edges after simplification

total ucounts = 785
nonsolo ucounts = 410[2^169, 3^73, 4^41, 5^29, 6^23, 7^10, 8^13, 9^2, 10, 11^3, 12^3, 15, 16, 22, 28, 34, 35, 48, 53, 62, 76^2, 78^2, 83^2, 84, 87, 88, 104, 105, 108^2, 122, 126, 127, 130, 147, 152, 160, 161^2, 166^2, 167^2, 197, 215, 219, 222, 224, 229, 232, 262]
surviving nonsolo ucounts = 38[28, 35, 48, 53, 62, 76^2, 78^2, 83, 84, 87, 88, 104, 105, 108^2, 122, 126, 127, 130, 147, 152, 160, 161^2, 166^2, 167^2, 197, 215, 219, 222, 224, 229, 232, 262]
ids = [127, 179, 318, 409, 171, 98, 527, 422, 633, 176, ...]

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

UMI info for barcode GGGTTGCGTCTTGTCC-1 contig 1 = ATCACATAAC...
umi AAAGCTGCTC = 108 reads: +418 validated
umi AATAAAACGT = 227 reads: +418 validated
umi ACAACTCAGG = 170 reads: +418 validated
umi ACGGTATTTG = 67 reads: +418 validated
umi AGATTCCGCA = 204 reads: +418 validated
umi AGGCATGTCC = 162 reads: +418 validated
umi ATACGGCCCT = 63 reads: +22 -106X +2 -1XX +211 -5 +67 -4 invalidated
umi ATAGTCCCGT = 68 reads: +418 validated
umi ATCAGCCATG = 35 reads: +381 -37 non-validated
umi ATGGCATAAG = 128 reads: +418 validated
umi CACATGTTAC = 167 reads: +418 validated
umi CGGGGTCATG = 153 reads: +418 validated
umi CTTGACACGG = 48 reads: +350 -3 +65 non-validated
umi CTTTGTTGAG = 214 reads: +418 validated
umi GAACGGTCTC = 87 reads: +289 -2X +108 -19 invalidated
umi GATCTGCTGC = 229 reads: +418 validated
umi GCAAACGACG = 27 reads: -24 +7 -1 +386 non-validated
umi GCAGGTCATA = 80 reads: +350 -1 +3 -1 +23 -1 +29 -1 +9 non-validated
umi GCTGGAGGGG = 168 reads: +418 validated
umi GGATGGTGCG = 135 reads: +418 validated
umi GGCTTCACGA = 108 reads: +418 validated
umi GGGTGACCAG = 78 reads: +384 -34 non-validated
umi GTCTTAGTCG = 230 reads: +418 validated
umi TATACATGCT = 221 reads: +418 validated
umi TATCGGTTCC = 160 reads: +418 validated
umi TATTGTAAAG = 79 reads: +409 -1 +8 non-validated
umi TCGCCAGGTA = 128 reads: +418 validated
umi TCTGACGGTG = 165 reads: +418 validated
umi TGATTAGCGT = 142 reads: +418 validated
umi TGCATGTCGC = 125 reads: +418 validated
umi TGGGCAATAG = 103 reads: +418 validated
umi TTACAAGGAT = 219 reads: +418 validated
umi TTGGCGAGCG = 88 reads: +418 validated
umi TTTAGATCGA = 199 reads: +418 validated

UMI info for barcode GGGTTGCGTCTTGTCC-1 contig 2 = GCTCTGCTTC...
umi AGATCTATGG = 26 reads: +391 validated
umi GGTCGCAGCG = 65 reads: +391 validated
umi TGGTCAACTT = 95 reads: +391 validated

GOOD CONTIGS

TIG 1[bases=547]
0-58 ==> 0-58 on |87|IGHV1-69D|5'UTR| [len=58] (mis=0)
58-411 ==> 0-353 on |88|IGHV1-69D|L-REGION+V-REGION| [len=353] (mis=9)
428-476 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=4)
476-547 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 28 umis using 311 reads
cdr3 = CASGEYSVYDPFDYW at 400, score = 9 + 6
umis assigned: [18, 52, 66, 98, 130, 151, 171, 176, 179, 200] and 24 others
of which 34 are surviving nonsolos
reads assigned: 4507
start codons at 58, 209, 256, 274, 278
confident = true

TIG 2[bases=582]
0-51 ==> 0-51 on |320|IGLV1-40|5'UTR| [len=51] (mis=0)
51-407 ==> 0-356 on |321|IGLV1-40|L-REGION+V-REGION| [len=356] (mis=4)
404-442 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=3)
442-582 ==> 0-140 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 3 umis using 26 reads
cdr3 = CQSYDSSLSGKVF at 375, score = 8 + 8
umis assigned: [127, 527, 709]
of which 3 are surviving nonsolos
reads assigned: 184
start codons at 51, 205, 208, 259, 358, 385
confident = true
now this is a cell
paired!

TCTGAGGACACGGCCGTGTATTACTGTGCGAGCGGAGAATATAGTGTCTACGATCCCTTTGACTACTGGGGCCAGGGAATCCTGGTCACCGTCTCCTCAG <==> GGGCTCCAGGCTGAGGATGAGGCTGATTATTACTGCCAGTCCTATGACAGCAGCCTGAGTGGGAAGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG

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

BARCODE 79.26 = GGGTTGCGTGCCTGCA-1

using 306 reads

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

graph has 96 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 4[2, 3, 6, 290]
surviving nonsolo ucounts = 1[290]
ids = [3]

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

UMI info for barcode GGGTTGCGTGCCTGCA-1 contig 1 = CCACATCCCT...
umi TATGCTCGTA = 265 reads: +418 validated

GOOD CONTIGS

TIG 1[bases=576]
0-42 ==> 0-42 on |72|IGHV1-3|5'UTR| [len=42] (mis=0)
42-395 ==> 0-353 on |73|IGHV1-3|L-REGION+V-REGION| [len=353] (mis=28)
412-460 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=4)
460-576 ==> 0-116 on |40|IGHG1|C-REGION| [len=884] (mis=1)
junction support: 1 umis using 41 reads
cdr3 = CTRISNTWPLYFDFW at 384, score = 9 + 7
umis assigned: [3]
of which 1 are surviving nonsolos
reads assigned: 265
start codons at 42, 193, 240, 245, 339
confident = false
NOT paired!

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

BARCODE 79.48 = GGGTTGCTCAAAGACA-1

using 277 reads

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

graph has 90 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[2^4, 265]
surviving nonsolo ucounts = 1[265]
ids = [6]

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

UMI info for barcode GGGTTGCTCAAAGACA-1 contig 1 = AGGAATCAGT...
umi GACCTGAACC = 220 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=493]
0-27 ==> 0-27 on |222|IGKV1-17|5'UTR| [len=27] (mis=0)
27-378 ==> 0-351 on |223|IGKV1-17|L-REGION+V-REGION| [len=351] (mis=19)
377-415 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=1)
415-493 ==> 0-78 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 34 reads
cdr3 = CLQYSSSPWTF at 354, score = 9 + 8
umis assigned: [6]
of which 1 are surviving nonsolos
reads assigned: 217
start codons at 27, 33, 102, 238, 457
confident = false
NOT paired!

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

BARCODE 79.60 = GGGTTGCTCACTCTTA-1

using 514 reads

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

graph has 144 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 1[511]
surviving nonsolo ucounts = 1[511]
ids = [1]

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

UMI info for barcode GGGTTGCTCACTCTTA-1 contig 1 = GGAGTGCTTT...
umi ACTCGCCTCG = 422 reads: +433 validated

GOOD CONTIGS

TIG 1[bases=500]
19-390 ==> 0-371 on |186|IGHV4-34|L-REGION+V-REGION| [len=371] (mis=0)
404-452 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=3)
452-500 ==> 0-48 on |6|IGHD|C-REGION| [len=1289] (mis=0)
junction support: 1 umis using 66 reads
cdr3 = CARGLGTSKSFDYW at 379, score = 9 + 7
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 414
start codons at 19, 40, 84, 170, 470
confident = false
NOT paired!

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

BARCODE 79.74 = GGGTTGCTCCGAATGT-1

using 514 reads

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

graph has 226 edges initially, 24 edges after simplification

total ucounts = 2
nonsolo ucounts = 2[244, 270]
surviving nonsolo ucounts = 2[244, 270]
ids = [1, 0]

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

UMI info for barcode GGGTTGCTCCGAATGT-1 contig 1 = GCTTCAGCTG...
umi CTGCCTTATG = 243 reads: +391 validated
umi TCATCAGGCC = 79 reads: +6 -1XX +1 -1XX +1 -2XX +14 -1XX +6 -1XX +7 -2XX +28 -1XX +3 -3XX +6 -2XX +3 -1XX +3 -1XX +4 -1XX +8 -113X +1 -1XX +15 -1XX +15 -1XX +35 -1XX +3 -1XX +6 -1XX +4 -1XX +10 -1XX +7 -35 +1 -1XX +1 -2XX +1 -2XX +1 -1XX +9 -1XX +11 -1XX invalidated

GOOD CONTIGS

TIG 1[bases=593]
0-46 ==> 5-51 on |320|IGLV1-40|5'UTR| [len=51] (mis=0)
46-402 ==> 0-356 on |321|IGLV1-40|L-REGION+V-REGION| [len=356] (mis=23)
399-437 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=4)
437-593 ==> 0-156 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 1 umis using 33 reads
cdr3 = CQSYDSSLNGSVF at 370, score = 9 + 8
umis assigned: [0, 1]
of which 2 are surviving nonsolos
reads assigned: 316
start codons at 46, 130, 203, 353, 380, 395
confident = false
NOT paired!

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

BARCODE 79.81 = GGGTTGCTCCTTGCCA-1

using 217 reads

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

graph has 88 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 3[2, 12, 199]
surviving nonsolo ucounts = 1[199]
ids = [4]

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

REJECT CONTIGS

TIG 1[bases=647]
1-67 ==> 5924-5990 on segment before IGLV2-5 exon 1 [len=6137] (mis=2)
23-214 ==> 5809-6000 on segment before IGLV2-34 exon 1 [len=6000] (mis=15)
42-85 ==> 0-43 on |337|IGLV2-11|L-REGION+V-REGION| [len=358] (mis=0)
68-215 ==> 5990-6137 on segment before IGLV2-5 exon 1 [len=6137] (mis=11)
202-506 ==> 43-347 on |337|IGLV2-11|L-REGION+V-REGION| [len=358] (mis=0)
503-541 ==> 0-38 on |309|IGLJ1|J-REGION| [len=38] (mis=1)
541-647 ==> 0-106 on |305|IGLC1|C-REGION| [len=317] (mis=0)
cdr3 = CCSYAGSYVF at 483, score = 8 + 8
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 193
start codons at 42, 298, 316, 360, 367, 370, 466, 493, 505
confident = false
not full
full length stopped transcript of length 647
frameshifted full length stopped transcript of length 647
VJ delta = -93
delta too large
not full
NOT paired!

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

BARCODE 79.95 = GGGTTGCTCTGTGCAA-1

using 72 reads

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

graph has 34 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 2[2, 66]
surviving nonsolo ucounts = 1[66]
ids = [5]

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

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

BARCODE 79.98 = GGGTTGCTCTTCGAGA-1

using 389 reads

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

graph has 192 edges initially, 2 edges after simplification

total ucounts = 16
nonsolo ucounts = 7[2^2, 3, 4, 5, 10, 354]
surviving nonsolo ucounts = 1[354]
ids = [11]

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

UMI info for barcode GGGTTGCTCTTCGAGA-1 contig 1 = AGACCCAGTC...
umi TAGTCCGGCC = 353 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=544]
0-20 ==> 27-47 on |218|IGKV1-12|5'UTR| [len=47] (mis=0)
20-371 ==> 0-351 on |219|IGKV1-12|L-REGION+V-REGION| [len=351] (mis=25)
369-408 ==> 0-39 on |214|IGKJ2|J-REGION| [len=39] (mis=5)
408-544 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 61 reads
cdr3 = CQQGNSFPYTF at 347, score = 9 + 8
umis assigned: [11]
of which 1 are surviving nonsolos
reads assigned: 347
start codons at 20, 26, 82, 95, 450
confident = false
NOT paired!

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

BARCODE 79.100 = GGGTTGCTCTTGGGTA-1

using 246 reads

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

graph has 104 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 2[5, 237]
surviving nonsolo ucounts = 1[237]
ids = [1]

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

UMI info for barcode GGGTTGCTCTTGGGTA-1 contig 1 = GGGGATGCTT...
umi AGATAAAGAG = 227 reads: +454 validated

GOOD CONTIGS

TIG 1[bases=565]
20-397 ==> 0-377 on |190|IGHV4-39|L-REGION+V-REGION| [len=377] (mis=10)
423-474 ==> 0-51 on |57|IGHJ5|J-REGION| [len=51] (mis=2)
474-565 ==> 0-91 on |40|IGHG1|C-REGION| [len=884] (mis=1)
junction support: 1 umis using 34 reads
cdr3 = CVRLVPGYFDWSYNWFDLW at 386, score = 9 + 7
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 223
start codons at 4, 20, 29, 41, 85
confident = false
NOT paired!

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

BARCODE 79.112 = GGTATTGAGAGTCGGT-1

using 298 reads

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

graph has 124 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[2^3, 5, 283]
surviving nonsolo ucounts = 1[283]
ids = [0]

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

UMI info for barcode GGTATTGAGAGTCGGT-1 contig 1 = GGAGTCAGAC...
umi AACGGGGCCT = 265 reads: +394 validated

GOOD CONTIGS

TIG 1[bases=441]
0-26 ==> 155-181 on |232|IGKV1-5|5'UTR| [len=181] (mis=1)
26-377 ==> 0-351 on |233|IGKV1-5|L-REGION+V-REGION| [len=351] (mis=12)
381-420 ==> 0-39 on |214|IGKJ2|J-REGION| [len=39] (mis=3)
420-441 ==> 0-21 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 47 reads
cdr3 = CQHFHSYSRMFTF at 353, score = 8 + 7
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 264
start codons at 26, 32, 88, 101, 237, 240, 333, 380
confident = false
NOT paired!

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

BARCODE 79.116 = GGTATTGAGATGCCTT-1

using 17 reads

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

graph has 18 edges initially, 2 edges after simplification

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

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

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

BARCODE 79.120 = GGTATTGAGCCACTAT-1

using 32 reads

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

graph has 28 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 3[2, 14, 16]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 79.121 = GGTATTGAGCCTATGT-1

using 548 reads

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

graph has 176 edges initially, 2 edges after simplification

total ucounts = 12
nonsolo ucounts = 7[2^2, 3, 4, 5, 6, 521]
surviving nonsolo ucounts = 1[521]
ids = [9]

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

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

BARCODE 79.125 = GGTATTGAGCTGATAA-1

using 177 reads

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

graph has 64 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 4[2^2, 3, 167]
surviving nonsolo ucounts = 1[167]
ids = [4]

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

REJECT CONTIGS

TIG 1[bases=520]
0-31 ==> 0-31 on |226|IGKV1-33|5'UTR| [len=31] (mis=1)
20-83 ==> 5678-5741 on segment before IGKV1OR2-6 exon 1 [len=5879] (mis=1)
31-83 ==> 0-52 on |227|IGKV1-33|L-REGION+V-REGION| [len=351] (mis=0)
97-396 ==> 52-351 on |227|IGKV1-33|L-REGION+V-REGION| [len=351] (mis=7) [SHIFT!]
396-433 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=0)
433-520 ==> 0-87 on |212|IGKC|C-REGION| [len=320] (mis=0)
cdr3 = CQQYDNLSLTF at 372, score = 9 + 9
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 150
start codons at 31, 37, 107, 120, 304, 382, 475
confident = false
not full
frameshifted full length stopped transcript of length 520
VJ delta = -1
not full
NOT paired!

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

BARCODE 79.128 = GGTATTGAGGCAGTCA-1

using 16 reads

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

graph has 14 edges initially, 2 edges after simplification

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

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

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

BARCODE 79.136 = GGTATTGAGGTGCTTT-1

using 399 reads

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

graph has 140 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 2[8, 388]
surviving nonsolo ucounts = 1[388]
ids = [1]

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

UMI info for barcode GGTATTGAGGTGCTTT-1 contig 1 = GTCAGACCCT...
umi TCTGAAAATC = 393 reads: +382 validated

GOOD CONTIGS

TIG 1[bases=547]
0-29 ==> 24-53 on |236|IGKV1-8|5'UTR| [len=53] (mis=1)
29-374 ==> 0-345 on |237|IGKV1-8|L-REGION+V-REGION| [len=345] (mis=22)
383-411 ==> 11-39 on |214|IGKJ2|J-REGION| [len=39] (mis=1)
411-547 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 63 reads
cdr3 = CQQYYSYPRTF at 350, score = 9 + 8
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 384
start codons at 23, 29, 85, 98, 234, 453
confident = false
NOT paired!

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

BARCODE 79.140 = GGTATTGAGTGGGATC-1

using 158 reads

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

graph has 52 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 1[152]
surviving nonsolo ucounts = 1[152]
ids = [5]

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

UMI info for barcode GGTATTGAGTGGGATC-1 contig 1 = GAGCTACAAC...
umi GCCTCAGTCG = 144 reads: +397 validated

GOOD CONTIGS

TIG 1[bases=504]
0-30 ==> 145-175 on |295|IGKV4-1|5'UTR| [len=175] (mis=0)
30-393 ==> 0-363 on |296|IGKV4-1|L-REGION+V-REGION| [len=363] (mis=4)
388-427 ==> 0-39 on |214|IGKJ2|J-REGION| [len=39] (mis=4)
427-504 ==> 0-77 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 27 reads
cdr3 = CQQYYSSYTF at 369, score = 9 + 8
umis assigned: [5]
of which 1 are surviving nonsolos
reads assigned: 144
start codons at 30, 99, 352, 469
confident = false
NOT paired!

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

BARCODE 79.153 = GGTATTGCAAGACGTG-1

using 332 reads

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

graph has 106 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[332]
surviving nonsolo ucounts = 1[332]
ids = [0]

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

UMI info for barcode GGTATTGCAAGACGTG-1 contig 1 = CTGGGCCTCA...
umi TCAAGCTGAG = 333 reads: +376 validated

GOOD CONTIGS

TIG 1[bases=624]
0-37 ==> 15-52 on |348|IGLV3-1|5'UTR| [len=52] (mis=0)
37-371 ==> 0-334 on |349|IGLV3-1|L-REGION+V-REGION| [len=346] (mis=18)
375-413 ==> 0-38 on |311|IGLJ2|J-REGION| [len=38] (mis=4)
413-624 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 1 umis using 40 reads
cdr3 = CQAWDSTEVVF at 352, score = 6 + 8
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 327
start codons at 37, 42, 331, 335
confident = false
NOT paired!

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

BARCODE 79.154 = GGTATTGCAAGCCATT-1

using 287 reads

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

graph has 84 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 3[6, 15, 264]
surviving nonsolo ucounts = 1[264]
ids = [4]

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

UMI info for barcode GGTATTGCAAGCCATT-1 contig 1 = CCTGGGTCAG...
umi TTTCCTATGT = 259 reads: +382 validated

GOOD CONTIGS

TIG 1[bases=570]
0-52 ==> 0-52 on |282|IGKV3-20|5'UTR| [len=52] (mis=1)
52-400 ==> 0-348 on |283|IGKV3-20|L-REGION+V-REGION| [len=348] (mis=12)
396-434 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=3)
434-570 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 32 reads
cdr3 = CQQYGSSPTF at 376, score = 9 + 8
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 258
start codons at 52, 260, 263, 386, 476
confident = false
NOT paired!

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

BARCODE 79.159 = GGTATTGCAATAGAGT-1

using 46 reads

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

graph has 44 edges initially, 2 edges after simplification

total ucounts = 11
nonsolo ucounts = 3[2, 10, 26]
surviving nonsolo ucounts = 1[26]
ids = [9]

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

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

BARCODE 79.168 = GGTATTGCACATCCGG-1

using 1263 reads

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

graph has 1550 edges initially, 40 edges after simplification

total ucounts = 405
nonsolo ucounts = 185[2^75, 3^39, 4^27, 5^12, 6^16, 7^4, 8^3, 9^3, 10, 11, 13, 15, 16, 368]
surviving nonsolo ucounts = 2[13, 368]
ids = [154, 168]

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

UMI info for barcode GGTATTGCACATCCGG-1 contig 1 = GAGGAGTCAG...
umi CGCATATCTG = 13 reads: -26 +82 -1XX +1 -1XX +6 -1XX +16 -1XX +6 -10 +2 -1X +3 -1XX +1 -2XX +4 -1XX +34 -1XX +51 -2XX +50 -84 invalidated
umi CGTTAATAAA = 385 reads: +223 -1XX +3 -1XX +160 invalidated

GOOD CONTIGS

TIG 1[bases=552]
28-381 ==> 0-353 on |253|IGKV1D-39|L-REGION+V-REGION| [len=353] (mis=12)
378-416 ==> 0-38 on |215|IGKJ3|J-REGION| [len=38] (mis=0)
416-552 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 56 reads
cdr3 = CQQSYSTPFTF at 355, score = 9 + 8
umis assigned: [154, 168]
of which 2 are surviving nonsolos
reads assigned: 375
start codons at 28, 34, 90, 103, 239, 458
confident = false
NOT paired!

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

BARCODE 79.175 = GGTATTGCACGACTCG-1

using 392 reads

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

graph has 148 edges initially, 4 edges after simplification

total ucounts = 10
nonsolo ucounts = 4[5, 8, 96, 277]
surviving nonsolo ucounts = 2[96, 277]
ids = [5, 4]

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

UMI info for barcode GGTATTGCACGACTCG-1 contig 1 = GTCAGACTCA...
umi GAAGGCTGTA = 256 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=415]
0-23 ==> 158-181 on |232|IGKV1-5|5'UTR| [len=181] (mis=1)
23-374 ==> 0-351 on |233|IGKV1-5|L-REGION+V-REGION| [len=351] (mis=8)
374-411 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=0)
junction support: 1 umis using 35 reads
cdr3 = CQQYNSYPLTF at 350, score = 8 + 9
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 255
start codons at 23, 29, 85, 98, 234, 237, 330
confident = false
NOT paired!

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

BARCODE 79.176 = GGTATTGCACGGTAGA-1

using 339 reads

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

graph has 140 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 2[10, 321]
surviving nonsolo ucounts = 1[321]
ids = [5]

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

UMI info for barcode GGTATTGCACGGTAGA-1 contig 1 = GTCAGACTCA...
umi TCTTTAAATG = 320 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=547]
0-23 ==> 158-181 on |232|IGKV1-5|5'UTR| [len=181] (mis=1)
23-374 ==> 0-351 on |233|IGKV1-5|L-REGION+V-REGION| [len=351] (mis=8)
374-411 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=0)
411-547 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 57 reads
cdr3 = CQQYNSYPLTF at 350, score = 8 + 9
umis assigned: [5]
of which 1 are surviving nonsolos
reads assigned: 315
start codons at 23, 29, 85, 98, 234, 237, 330, 453
confident = false
NOT paired!

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

BARCODE 79.178 = GGTATTGCACTAAGTC-1

using 10591 reads

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

graph has 5195 edges initially, 56 edges after simplification

total ucounts = 844
nonsolo ucounts = 401[2^135, 3^82, 4^59, 5^36, 6^24, 7^13, 8^7, 9^7, 10^4, 11^2, 12^2, 13, 15, 71, 97, 111, 117, 145, 146, 155, 168, 195, 221, 229, 237, 261, 272, 273, 292, 310, 323, 330^2, 344, 369, 376, 385, 397, 434, 740, 1420]
surviving nonsolo ucounts = 27[71, 97, 111, 117, 145, 146, 155, 168, 195, 229, 237, 261, 272, 273, 292, 310, 323, 330^2, 344, 369, 376, 385, 397, 434, 740, 1420]
ids = [547, 699, 316, 494, 694, 841, 491, 90, 554, 744, ...]

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

UMI info for barcode GGTATTGCACTAAGTC-1 contig 1 = GCTCTGCTTC...
umi ACACGCTCGG = 751 reads: -351X +1 -2XX +1 -4XX +3 -1XX +31 invalidated
umi ACCTACTCGA = 273 reads: +394 validated
umi ATCCAACCCG = 312 reads: +394 validated
umi CCCGAAGCCA = 298 reads: +394 validated
umi CCGAATCCAG = 110 reads: +394 validated
umi GCACTTACCG = 153 reads: +394 validated
umi GCAGTACCCT = 74 reads: +202 -7 +4 -2 +1 -1 +66 -111 non-validated
umi GTGGACAACT = 1449 reads: -351 +1 -2XX +1 -4XX +3 -1XX +31 invalidated
umi TCCCACATTA = 146 reads: +394 validated
umi TCCGTAGAGT = 100 reads: +394 validated
umi TGCGACCTCG = 232 reads: +394 validated
umi TTATACAGTG = 236 reads: +394 validated
umi TTCGCTCATA = 262 reads: +394 validated
umi TTGTGTGGGC = 333 reads: +394 validated
umi TTTCCCAGAC = 271 reads: +394 validated

UMI info for barcode GGTATTGCACTAAGTC-1 contig 2 = TGGGGATGCT...
umi AAACCTACTC = 439 reads: +424 validated
umi ACCAAAAAGG = 132 reads: +424 validated
umi ATCGCACGCA = 386 reads: +424 validated
umi CCAATTCTAA = 343 reads: +424 validated
umi CCGCGACACC = 312 reads: +424 validated
umi CCTACTAGCT = 270 reads: +424 validated
umi CGGCTGCTCT = 378 reads: +424 validated
umi GAGTACAGTT = 330 reads: +424 validated
umi GATTCTATTC = 20 reads: -161X +1 -2XX +4 -1XX +4 -1XX +2 -2XX +1 -1XX +21 -1XX +1 -5XX +4 -2XX +2 -2XX +1 -2XX +2 -1XX +2 -7XX +1 -127XX +1 -2XX +1 -1XX +3 -1XX +1 -1XX +2 -2XX +1 -3XX +3 -1XX +25 -1 +1 -13 invalidated
umi GTAAGTTTTG = 61 reads: +393 -31 non-validated
umi GTACTCTTAA = 196 reads: +424 validated
umi TCGTATGCCT = 324 reads: +424 validated
umi TTTTCTGCTT = 115 reads: +424 validated

GOOD CONTIGS

TIG 1[bases=656]
0-51 ==> 0-51 on |320|IGLV1-40|5'UTR| [len=51] (mis=0)
51-407 ==> 0-356 on |321|IGLV1-40|L-REGION+V-REGION| [len=356] (mis=0)
407-445 ==> 0-38 on |311|IGLJ2|J-REGION| [len=38] (mis=1)
445-656 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 12 umis using 450 reads
cdr3 = CQSYDSSLSGSVVF at 375, score = 8 + 8
umis assigned: [81, 102, 202, 311, 316, 491, 494, 578, 694, 699] and 5 others
of which 15 are surviving nonsolos
reads assigned: 4882
start codons at 51, 205, 208, 259, 358, 385
confident = true

TIG 2[bases=537]
42-387 ==> 0-345 on |742|IGHV4-38-2|L-REGION+V-REGION| [len=345] (mis=1)
418-466 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=3)
466-537 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 11 umis using 323 reads
cdr3 = CASDQNGYHAEEIFDYW at 384, score = 9 + 7
umis assigned: [8, 90, 207, 300, 322, 326, 371, 470, 482, 547] and 3 others
of which 12 are surviving nonsolos
reads assigned: 3266
start codons at 5, 21, 42, 86, 400
confident = true
now this is a cell
paired!

GACACGGCCGTGTATTACTGTGCGAGCGATCAGAATGGTTACCACGCTGAAGAAATCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG <==> CTCCAGGCTGAGGATGAGGCTGATTATTACTGCCAGTCCTATGACAGCAGCCTGAGTGGTTCAGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG

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

BARCODE 79.183 = GGTATTGCAGATAATG-1

using 327 reads

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

graph has 116 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[327]
surviving nonsolo ucounts = 1[327]
ids = [0]

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

UMI info for barcode GGTATTGCAGATAATG-1 contig 1 = GGGGAGGAAC...
umi CAGTCTACTC = 325 reads: +382 validated

GOOD CONTIGS

TIG 1[bases=554]
0-36 ==> 61-97 on |280|IGKV3-15|5'UTR| [len=97] (mis=0)
36-381 ==> 0-345 on |281|IGKV3-15|L-REGION+V-REGION| [len=345] (mis=17)
380-418 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=3)
418-554 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 46 reads
cdr3 = CLQYSDWPRTF at 357, score = 9 + 8
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 322
start codons at 36, 105, 241, 460
confident = false
NOT paired!

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BARCODE 79.186 = GGTATTGCAGCATGAG-1

using 246 reads

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

graph has 82 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 2[5, 237]
surviving nonsolo ucounts = 1[237]
ids = [3]

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

UMI info for barcode GGTATTGCAGCATGAG-1 contig 1 = TGGGGCTCCA...
umi GTCTTTTCCT = 226 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=588]
46-398 ==> 0-352 on |333|IGLV10-54|L-REGION+V-REGION| [len=352] (mis=20)
396-434 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=1)
434-588 ==> 0-154 on |307|IGLC3|C-REGION| [len=317] (mis=0)
junction support: 1 umis using 41 reads
cdr3 = CSAWDSSLNVWVF at 367, score = 7 + 8
umis assigned: [3]
of which 1 are surviving nonsolos
reads assigned: 221
start codons at 46, 185, 375, 392
confident = false
NOT paired!

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BARCODE 79.187 = GGTATTGCAGCGTAAG-1

using 67450 reads

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

graph has 24443 edges initially, 330 edges after simplification

total ucounts = 3393
nonsolo ucounts = 1611[2^511, 3^304, 4^178, 5^140, 6^95, 7^52, 8^53, 9^32, 10^16, 11^11, 12^14, 13^9, 14^4, 15^4, 16^5, 17^4, 18, 19^5, 21, 24, 25, 28, 29, 44, 45, 53, 59, 63, 82, 84, 85, 93, 95, 105^2, 116, 121, 124, 125, 126, 128, 129, 132, 154, 155, 161, 162, 174, 176, 195, 197, 198^2, 201, 205, 206, 209, 210^2, 216, 217, 218, 220, 222, 223, 226, 227, 228, 229^2, 235^2, 237^2, 240, 243, 244^2, 247, 250^2, 251, 254^3, 259, 261, 262, 263, 264, 265, 266, 267, 268^2, 271^3, 274, 275, 276, 278, 281^2, 286, 287^3, 288^3, 289, 290, 291, 292^3, 294, 295, 296, 299, 300, 301^2, 302, 306^2, 309, 312^2, 316, 317, 319, 320^2, 321, 325, 326, 329, 331, 332, 341, 343, 350, 360, 362, 370, 378, 383, 384, 389, 391, 394, 405, 418, 425, 439, 449, 461, 468, 472, 514, 561^2, 582, 588, 630, 639, 659, 699, 705, 716, 730, 760, 799, 804, 830, 835, 856, 865, 868, 869, 910, 927, 950, 991, 1003, 1017, 1061, 1085, 1188]
surviving nonsolo ucounts = 165[2, 3, 45, 59, 84, 93, 95, 105^2, 116, 121, 124, 125, 126, 128, 129, 132, 154, 155, 161, 162, 174, 176, 195, 197, 198^2, 201, 205, 206, 209, 210^2, 216, 217, 218, 220, 222, 223, 226, 227, 228, 229^2, 235^2, 237^2, 240, 243, 244^2, 247, 250^2, 251, 254^3, 259, 261, 262, 263, 264, 265, 266, 267, 268^2, 271^3, 274, 275, 276, 278, 281^2, 286, 287^3, 288^3, 289, 290, 291, 292^3, 294, 295, 296, 299, 300, 301^2, 302, 306^2, 309, 312^2, 316, 317, 319, 320^2, 321, 325, 326, 329, 331, 332, 341, 343, 350, 360, 362, 370, 378, 383, 384, 389, 391, 394, 405, 418, 425, 439, 449, 461, 468, 472, 514, 561^2, 582, 588, 630, 639, 659, 699, 705, 716, 730, 760, 799, 804, 830, 835, 856, 865, 868, 869, 910, 927, 950, 991, 1003, 1017, 1061, 1085, 1188]
ids = [2815, 2797, 2606, 1371, 1800, 3100, 1867, 473, 1818, 2328, ...]

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

UMI info for barcode GGTATTGCAGCGTAAG-1 contig 1 = TGGGGCTCCA...
umi AATAACCATT = 802 reads: -239 +149 non-validated
umi ACCCTCAGTA = 177 reads: +388 validated
umi ACCTGCGATC = 229 reads: +388 validated
umi ACGCTTGATC = 112 reads: +15 -1 +5 -5XX +3 -7XX +1 -1XX +4 -1XX +345 invalidated
umi ACTGCTTTCT = 278 reads: +388 validated
umi AGTTGCAATA = 306 reads: +388 validated
umi ATATCTTAAC = 223 reads: +388 validated
umi ATCGCCGGCT = 261 reads: +388 validated
umi ATGAATGATA = 293 reads: +388 validated
umi ATGAGGTTGG = 296 reads: +388 validated
umi ATGTACCTCT = 205 reads: +388 validated
umi ATTACTTAAC = 340 reads: +388 validated
umi ATTGATGTAA = 253 reads: +388 validated
umi CAAGGTCGAA = 725 reads: -348 +1 -1XX +38 invalidated
umi CACACGGCCG = 353 reads: +388 validated
umi CACCCTTCGG = 391 reads: +388 validated
umi CACGGCGGTT = 291 reads: +388 validated
umi CACGTACATA = 628 reads: +388 validated
umi CAGGTAGGTT = 857 reads: -235X +153 invalidated
umi CATCATTGGT = 231 reads: +388 validated
umi CCATACACGT = 253 reads: +388 validated
umi CCTTTGGCAC = 298 reads: +388 validated
umi CGAAGACCCG = 250 reads: +338 -1 +49 non-validated
umi CTCAGTTTGT = 281 reads: +219 -1XX +168 invalidated
umi CTCCTTTCTC = 323 reads: +388 validated
umi CTTCGTTCCT = 226 reads: +388 validated
umi GAGATGGTAC = 299 reads: +388 validated
umi GAGCTCACTC = 264 reads: +388 validated
umi GATTCCTGGT = 278 reads: +388 validated
umi GCAATTCACC = 323 reads: +388 validated
umi GGATGACCTC = 286 reads: +388 validated
umi GGCCCGCTTC = 298 reads: +388 validated
umi GGCGTTCGGA = 266 reads: +388 validated
umi GGTTTTTGGT = 228 reads: +388 validated
umi GTACGAGTTA = 304 reads: +388 validated
umi GTAGTTGTTA = 197 reads: +388 validated
umi GTATCCATTC = 376 reads: -14 +1 -2X +371 invalidated
umi GTCCTTTAAT = 290 reads: +388 validated
umi GTGAATCTAA = 269 reads: +388 validated
umi GTGCTACCGC = 361 reads: +388 validated
umi GTTAATTGTC = 316 reads: +388 validated
umi TAAAGCGTTA = 242 reads: +388 validated
umi TACGAATCTT = 231 reads: +388 validated
umi TACGACAGAG = 517 reads: +388 validated
umi TATAAGCTCC = 270 reads: +388 validated
umi TCACGGGCCT = 219 reads: +388 validated
umi TCATGGGTTA = 236 reads: +388 validated
umi TCTATACGGG = 292 reads: +388 validated
umi TGAACGTCCT = 293 reads: +388 validated
umi TGCTCGCCCT = 281 reads: +388 validated
umi TGGATAGTCT = 303 reads: +388 validated
umi TGGTGAGGCG = 245 reads: +388 validated
umi TTAAGTCGGT = 261 reads: +388 validated
umi TTCAATTGGG = 154 reads: +388 validated
umi TTCACCAAAC = 195 reads: +23 -3XX +3 -7XX +1 -1XX +4 -1XX +345 invalidated
umi TTGCGTGTAT = 254 reads: +388 validated
umi TTGTACTTCA = 340 reads: +388 validated
umi TTGTCGAGTG = 303 reads: +388 validated
umi TTTAGACCTC = 994 reads: -261X +127 invalidated
umi TTTTCCTGGC = 317 reads: +388 validated

UMI info for barcode GGTATTGCAGCGTAAG-1 contig 2 = GAGCTCTGGG...
umi ACATCTGGGT = 286 reads: +406 validated
umi ACCTGCACGC = 410 reads: -370X +16 -1XX +1 -1XX +12 -1XX +4 invalidated
umi ACGCTTGCTG = 164 reads: +406 validated
umi AGTACTGGCT = 99 reads: +406 validated
umi ATGTCCTAGG = 116 reads: -402 +4 non-validated
umi CAAATTCGCT = 213 reads: +406 validated
umi CACTGACCCT = 157 reads: +406 validated
umi CATTAGTTCC = 307 reads: +406 validated
umi CCCTAAGTCC = 319 reads: +406 validated
umi CCTATACCTC = 570 reads: -366 +2 -3X +9 -1XX +2 -1XX +2 -2XX +13 -1XX +4 invalidated
umi CCTTCCTCTC = 199 reads: +406 validated
umi CGAATACAGG = 120 reads: +406 validated
umi CGTGAGTGCC = 234 reads: +406 validated
umi GAAGTATCAA = 237 reads: +406 validated
umi GACTAACCAG = 265 reads: +406 validated
umi GCAGTCAGGG = 198 reads: +372 -34 non-validated
umi GCCAGCCAAA = 73 reads: -370 +16 -1X +1 -1X +12 -1X +4 invalidated
umi GCCCGGTCTT = 105 reads: +406 validated
umi GGCGCGCATA = 249 reads: +406 validated
umi GGGCATCAAA = 258 reads: +406 validated
umi GTGCATGGGT = 381 reads: +406 validated
umi GTGTTAGGGG = 238 reads: +406 validated
umi TAAGAGCTCT = 206 reads: +406 validated
umi TCCACTGTTA = 124 reads: +406 validated
umi TCGTGGTACC = 127 reads: +387 -19 non-validated
umi TCTTTAACGT = 295 reads: +406 validated

GOOD CONTIGS

TIG 1[bases=645]
46-398 ==> 0-352 on |333|IGLV10-54|L-REGION+V-REGION| [len=352] (mis=23)
396-434 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=2)
434-645 ==> 0-211 on |307|IGLC3|C-REGION| [len=317] (mis=0)
junction support: 59 umis using 3041 reads
cdr3 = CSAWDSSLKVWVF at 367, score = 7 + 8
umis assigned: [78, 199, 226, 253, 320, 519, 572, 618, 659, 661] and 50 others
of which 60 are surviving nonsolos
reads assigned: 18859
start codons at 46, 185, 375
confident = true

TIG 2[bases=557]
0-80 ==> 0-80 on |123|IGHV3-30|5'UTR| [len=80] (mis=1)
80-431 ==> 0-351 on |124|IGHV3-30|L-REGION+V-REGION| [len=351] (mis=21)
436-486 ==> 0-50 on |53|IGHJ3|J-REGION| [len=50] (mis=1)
486-557 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 19 umis using 328 reads
cdr3 = CVKEEDAFDIW at 422, score = 9 + 8
umis assigned: [165, 223, 254, 473, 691, 774, 855, 984, 1115, 1201] and 16 others
of which 26 are surviving nonsolos
reads assigned: 5854
start codons at 80, 231, 236, 263, 297, 383, 438, 467
confident = true

REJECT CONTIGS

TIG 1[bases=374]
54-211 ==> 0-157 on rc of segment before IGHJ3P exon 1 [len=157] (mis=0)
209-272 ==> 0-63 on |737|IGHJ6|J-REGION| [len=63] (mis=0)
272-374 ==> 0-102 on |6|IGHD|C-REGION| [len=1289] (mis=0)
umis assigned: [2559]
of which 1 are surviving nonsolos
reads assigned: 283
start codons at 61, 95, 134, 189, 229, 290, 351
confident = false
did not find CDR3

TIG 2[bases=571]
2-81 ==> 5529-5608 on segment before IGKV2OR2-1 exon 1 [len=6000] (mis=2)
36-396 ==> 0-360 on |265|IGKV2-28|L-REGION+V-REGION| [len=360] (mis=5)
397-435 ==> 0-38 on |217|IGKJ5|J-REGION| [len=38] (mis=0)
435-571 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
cdr3 = CWHLLLHASSTNSSITF at 356, score = 4 + 8
umis assigned: [126, 401, 431, 513, 610, 665, 734, 915, 1566, 1667] and 11 others
of which 21 are surviving nonsolos
reads assigned: 6067
start codons at 36, 69, 105, 193, 355, 375, 477
confident = false
not full
frameshifted full length transcript of length 571
VJ delta = 30
not full
now this is a cell
paired!

AGCAGCCTGAGAGCTGAGGACACGGCTCTTTATTACTGTGTTAAAGAGGAGGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG <==> GGACTCCAGCCTGACGACGAGGGTGACTATTACTGCTCAGCATGGGACAGCAGCCTCAAGGTTTGGGTGTTCGGCGGAGGGACCAAACTGACCGTCCTGG
sorting bam, mem = 0.13
running samtools sort -l 8G -o /scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/VDJ_B_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk079-ucc6a7a72ce/files/contig_bam_sorted.bam /scratch/etanis/ST-118/multi/dimitri-multi/SC_MULTI_CS/SC_MULTI_CORE/MULTI_GEM_WELL_PROCESSOR/VDJ_B_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk079-ucc6a7a72ce/files/contig_bam.bam

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15.268 seconds used processing barcodes, peak mem = 0.30
