[stdout]

starting vdj_asm_asm, mem = 0.01
available mem = 844.36 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_GE...
n50_n50_rpu = 288

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

BARCODE 8.0 = ACCTTTAGTAGAAAGG-1

using 22564 reads

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

graph has 8716 edges initially, 148 edges after simplification

total ucounts = 1245
nonsolo ucounts = 699[2^217, 3^130, 4^97, 5^70, 6^30, 7^29, 8^14, 9^9, 10^10, 11^10, 12^4, 13^6, 14^3, 15, 16^4, 18^2, 48, 52, 58, 77, 79, 97, 112, 138^2, 1...
surviving nonsolo ucounts = 58[77, 97, 112, 138^2, 153, 173, 177, 179, 191^2, 194^2, 207, 210, 211, 216, 223, 224, 238, 244^2, 252, 255, 268, 269, 271, 272,...
ids = [79, 1113, 443, 622, 1213, 134, 1028, 220, 554, 150, ...]

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

UMI info for barcode ACCTTTAGTAGAAAGG-1 contig 1 = GAGGGTCCTG...
umi AACAACTGGT = 216 reads: +445 validated
umi ACGTTATCTG = 192 reads: +445 validated
umi GACATAAGTA = 484 reads: -412X +1 -5XX +1 -2XX +3 -10XX +1 -2XX +1 -6XX +1 invalidated
umi GACCAAGGGC = 297 reads: -412 +1 -3XX +1 -1XX +1 -2XX +3 -10XX +1 -2XX +1 -6XX +1 invalidated
umi TCTGATACAC = 329 reads: +364 -7XX +1 -1XX +1 -1XX +2 -2XX +1 -3X +1 -42X +1 -2XX +1 -2XX +1 -2XX +3 -6XX +1 invalidated
umi TTTGCAAATC = 506 reads: -412 +2 -1XX +2 -2XX +4 -5XX +2 -1XX +2 -2XX +2 -2XX +1 -2XX +3 invalidated

UMI info for barcode ACCTTTAGTAGAAAGG-1 contig 2 = AGCTGTGGGC...
umi AAAAGGCCAA = 211 reads: +382 validated
umi AAATACATGC = 295 reads: +382 validated
umi AAGGTTTTAC = 251 reads: +382 validated
umi AAGTAGGGCT = 79 reads: -5 +377 non-validated
umi AAGTCCTCAT = 933 reads: -340X +1 -3XX +1 -4XX +1 -1XX +31 invalidated
umi AATATTAGCC = 206 reads: +382 validated
umi ATAAGTTATC = 223 reads: +382 validated
umi ATAATCCTGG = 174 reads: +382 validated
umi ATATGCGGGT = 272 reads: +382 validated
umi ATTCAGCCGC = 299 reads: +382 validated
umi ATTGTTTATT = 243 reads: +382 validated
umi CCTAAGCACC = 286 reads: +382 validated
umi CGTTGACCTT = 267 reads: +382 validated
umi CTTCGAGCAA = 191 reads: +382 validated
umi GAGATTCGAT = 138 reads: +382 validated
umi GAGCTGGTAC = 289 reads: -112 +270 non-validated
umi GAGGTACTTT = 764 reads: -345 +1 -3XX +1 -1XX +31 invalidated
umi GATCACTGTT = 193 reads: +382 validated
umi GTATTACAGG = 275 reads: +382 validated
umi TAAATGTTCA = 222 reads: +382 validated
umi TAATCTCCTA = 637 reads: -345X +1 -3XX +1 -1XX +31 invalidated
umi TACCATTGCA = 273 reads: +382 validated
umi TATTGCACTC = 196 reads: +382 validated
umi TCAAGTCGGT = 212 reads: +382 validated
umi TTAACATGGC = 94 reads: +382 validated
umi TTACAACAAT = 688 reads: -340X +1 -3XX +1 -4XX +1 -1XX +31 invalidated
umi TTTTTCTCGT = 239 reads: +382 validated

GOOD CONTIGS

TIG 1[bases=686]
59-407 ==> 0-348 on |740|IGHV4-30-4|L-REGION+V-REGION| [len=348] (mis=11)
424-451 ==> 0-27 on |18|IGHD3-10|D-REGION| [len=27] (mis=4)
454-504 ==> 0-50 on |53|IGHJ3|J-REGION| [len=50] (mis=1)
504-686 ==> 0-182 on |40|IGHG1|C-REGION| [len=884] (mis=1)
junction support: 2 umis using 38 reads
cdr3 = CARVLMGNYYGSGSYAADAFDIW at 404, score = 9 + 8
umis assigned: [29, 150, 604, 606, 1018, 1227]
of which 5 are surviving nonsolos
reads assigned: 1812
start codons at 15, 59, 103, 207, 419, 432, 447, 456
confident = true

TIG 2[bases=633]
0-40 ==> 0-40 on |356|IGLV3-19|5'UTR| [len=40] (mis=0)
40-377 ==> 0-337 on |357|IGLV3-19|L-REGION+V-REGION| [len=337] (mis=3)
384-422 ==> 0-38 on |311|IGLJ2|J-REGION| [len=38] (mis=2)
422-633 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 22 umis using 857 reads
cdr3 = CNSRDNSDNHVLF at 355, score = 8 + 8
umis assigned: [2, 15, 77, 79, 81, 90, 219, 220, 238, 285] and 17 others
of which 27 are surviving nonsolos
reads assigned: 8050
start codons at 40, 159, 188, 239, 338, 383
confident = true

REJECT CONTIGS

TIG 1[bases=417]
1-78 ==> 271-348 on rc of segment before IGHJ5 exon 1 [len=348] (mis=0)
128-285 ==> 0-157 on rc of segment before IGHJ3P exon 1 [len=157] (mis=0)
283-346 ==> 0-63 on |737|IGHJ6|J-REGION| [len=63] (mis=0)
346-417 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
umis assigned: [1158]
of which 1 are surviving nonsolos
reads assigned: 329
start codons at 135, 169, 208, 263, 303
... 35123 lines elided ...
cdr3 = CASWDDSLRGRVF at 368, score = 8 + 8
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 264
start codons at 47, 201, 351, 376, 381
confident = false
NOT paired!

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

BARCODE 8.4239 = AGAGTGGCATGGATGG-1

using 323 reads

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

graph has 138 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 2[2, 317]
surviving nonsolo ucounts = 1[317]
ids = [2]

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

UMI info for barcode AGAGTGGCATGGATGG-1 contig 1 = GTCAGTCTCA...
umi CGTTGACTTC = 323 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=547]
0-23 ==> 24-47 on |230|IGKV1-39|5'UTR| [len=47] (mis=0)
23-374 ==> 0-351 on |231|IGKV1-39|L-REGION+V-REGION| [len=351] (mis=11)
373-411 ==> 0-38 on |217|IGKJ5|J-REGION| [len=38] (mis=0)
411-547 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 57 reads
cdr3 = CQQSYRRPITF at 350, score = 8 + 8
umis assigned: [2]
of which 1 are surviving nonsolos
reads assigned: 317
start codons at 23, 29, 85, 98, 234, 333, 453
confident = false
NOT paired!

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

BARCODE 8.4240 = AGAGTGGGTAAGGGAA-1

using 207 reads

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

graph has 124 edges initially, 2 edges after simplification

total ucounts = 11
nonsolo ucounts = 6[2, 3^2, 4, 5, 185]
surviving nonsolo ucounts = 1[185]
ids = [4]

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

UMI info for barcode AGAGTGGGTAAGGGAA-1 contig 1 = TCACAAGAGG...
umi GAATAAGATA = 184 reads: +391 validated

GOOD CONTIGS

TIG 1[bases=520]
0-34 ==> 128-162 on |342|IGLV2-23|5'UTR| [len=162] (mis=0)
34-327 ==> 0-293 on |343|IGLV2-23|L-REGION+V-REGION| [len=340] (mis=22)
387-425 ==> 0-38 on |311|IGLJ2|J-REGION| [len=38] (mis=7)
425-520 ==> 0-95 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 1 umis using 23 reads
cdr3 = CSSYAGRTTFDVF at 358, score = 7 + 8
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 181
start codons at 34, 170, 173, 188, 191, 368
confident = false
NOT paired!

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

BARCODE 8.4247 = AGAGTGGGTCAATGTC-1

using 301 reads

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

graph has 136 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[2, 298]
surviving nonsolo ucounts = 1[298]
ids = [0]

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

UMI info for barcode AGAGTGGGTCAATGTC-1 contig 1 = GGGGAGGAAC...
umi AATCACGCTA = 271 reads: +385 validated

GOOD CONTIGS

TIG 1[bases=489]
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=18)
382-421 ==> 0-39 on |214|IGKJ2|J-REGION| [len=39] (mis=3)
421-489 ==> 0-68 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 50 reads
cdr3 = CQQYYNWPPYTF at 357, score = 9 + 8
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 269
start codons at 36, 105, 241, 463
confident = false
NOT paired!

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

BARCODE 8.4251 = AGAGTGGGTCCTCCAT-1

using 489 reads

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

graph has 236 edges initially, 14 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[238, 250]
surviving nonsolo ucounts = 2[238, 250]
ids = [0, 2]

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

UMI info for barcode AGAGTGGGTCCTCCAT-1 contig 1 = GGAGTCAGAC...
umi CAGAGCGTGG = 265 reads: +226 -1XX +1 -1XX +2 -1X +1 -1 +151 invalidated
umi TTCACTCATC = 251 reads: +385 validated

GOOD CONTIGS

TIG 1[bases=547]
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=19)
373-411 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=2)
411-547 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 2 umis using 70 reads
cdr3 = CQQSNSYWTF at 353, score = 8 + 8
umis assigned: [0, 2]
of which 2 are surviving nonsolos
reads assigned: 482
start codons at 26, 32, 86, 101, 237, 240, 333, 453
confident = false
NOT paired!

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

BARCODE 8.4253 = AGAGTGGGTCTCCATC-1

using 968 reads

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

graph has 388 edges initially, 4 edges after simplification

total ucounts = 8
nonsolo ucounts = 7[2^2, 3, 4, 16, 259, 681]
surviving nonsolo ucounts = 2[259, 681]
ids = [6, 5]

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

UMI info for barcode AGAGTGGGTCTCCATC-1 contig 1 = AAAACCACAC...
umi TACATTTTGC = 252 reads: +436 validated

UMI info for barcode AGAGTGGGTCTCCATC-1 contig 2 = GTCAGTCCCA...
umi GCATGATTGC = 686 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=550]
0-49 ==> 10-59 on |64|IGHV1-18|5'UTR| [len=59] (mis=1)
49-402 ==> 0-353 on |65|IGHV1-18|L-REGION+V-REGION| [len=353] (mis=22)
451-485 ==> 12-46 on |54|IGHJ4|J-REGION| [len=46] (mis=0)
485-550 ==> 0-65 on |1|IGHA1|C-REGION| [len=1058] (mis=0)
junction support: 1 umis using 27 reads
cdr3 = CARDKHFRDPYYHYSGALDHW at 391, score = 7 + 7
umis assigned: [6]
of which 1 are surviving nonsolos
reads assigned: 245
start codons at 49, 247, 252, 269, 313, 346, 539
confident = false

TIG 2[bases=547]
0-23 ==> 8-31 on |226|IGKV1-33|5'UTR| [len=31] (mis=0)
23-374 ==> 0-351 on |227|IGKV1-33|L-REGION+V-REGION| [len=351] (mis=22)
374-411 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=2)
411-547 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 113 reads
cdr3 = CQQFDSVPLTF at 350, score = 9 + 9
umis assigned: [5]
of which 1 are surviving nonsolos
reads assigned: 673
start codons at 23, 29, 85, 98, 234, 237, 453
confident = false
NOT paired!

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

BARCODE 8.4262 = AGAGTGGGTGGTGTAG-1

using 56 reads

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

graph has 64 edges initially, 2 edges after simplification

total ucounts = 14
nonsolo ucounts = 9[2^2, 3^3, 6, 8, 11, 13]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 8.4263 = AGAGTGGGTGTTGAGG-1

using 23 reads

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

graph has 12 edges initially, 2 edges after simplification

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

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

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

BARCODE 8.4267 = AGAGTGGGTTACTGAC-1

using 25291 reads

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

graph has 7542 edges initially, 114 edges after simplification

total ucounts = 786
nonsolo ucounts = 380[2^125, 3^61, 4^45, 5^27, 6^23, 7^9, 8^4, 9^3, 10, 11^5, 12^3, 13, 15, 19, 27, 33, 40, 47, 59, 73, 88, 89, 98, 114, 126, 141, 145, 146,...
surviving nonsolo ucounts = 66[33, 59, 88, 89, 114, 126, 141, 145, 146, 153, 177, 178, 180, 183, 186, 189, 194, 204, 211^2, 218, 219, 220, 227, 230, 239, 24...
ids = [308, 390, 529, 523, 82, 321, 66, 443, 274, 589, ...]

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

UMI info for barcode AGAGTGGGTTACTGAC-1 contig 1 = TGAGCGCAGA...
umi AACCAGATGT = 225 reads: +391 validated
umi ACCACCACGC = 140 reads: +391 validated
umi ACCCAGACGG = 251 reads: +391 validated
umi ACCTTATGCT = 175 reads: +391 validated
umi ACGATCGCGG = 113 reads: +391 validated
umi AGGACTGATT = 547 reads: -363 +2 -1XX +25 invalidated
umi ATACAGCGCT = 677 reads: -346 +1 -9XX +3 -1XX +31 invalidated
umi ATCACCTCAC = 938 reads: -344X +1 -11XX +3 -1XX +31 invalidated
umi ATCCCTGATA = 971 reads: -344X +1 -1XX +1 -9XX +3 -1XX +31 invalidated
umi ATGATTCTCG = 22 reads: -339X +1 -5XX +2 -2XX +1 -6XX +3 -1XX +31 invalidated
umi ATGCGATTCG = 602 reads: -351X +1 -4XX +3 -1XX +31 invalidated
umi CACTCGGTAC = 253 reads: +391 validated
umi CAGTTCCTCG = 274 reads: +391 validated
umi CATCAGGTCC = 946 reads: -344X +1 -1XX +1 -9XX +3 -1XX +31 invalidated
umi CCAACATGCG = 806 reads: -351X +1 -4XX +3 -1XX +31 invalidated
umi CCGGGTTGCT = 124 reads: +391 validated
umi CGACATCTGC = 170 reads: +391 validated
umi CGGGTTCGAT = 311 reads: +391 validated
umi CGTTAACAGC = 745 reads: -348 +1 -7XX +3 -1XX +31 invalidated
umi CTACCATTCG = 168 reads: +42 -1XX +348 invalidated
umi CTATATCCTG = 215 reads: +391 validated
umi GAGTGCACGG = 148 reads: +391 validated
umi GGAAATGGTA = 272 reads: +391 validated
umi GGCCTATGCG = 241 reads: +391 validated
umi GGGAGTTGAG = 186 reads: +391 validated
umi GTGTACTACC = 868 reads: -331X +2 -1XX +2 -7XX +2 -11XX +3 -1XX +31 invalidated
umi GTGTGATGGT = 208 reads: +391 validated
umi TCAGCGAGCC = 298 reads: +391 validated
umi TTTTCTGCCA = 928 reads: -331X +2 -1XX +2 -7XX +2 -11XX +3 -1XX +31 invalidated

UMI info for barcode AGAGTGGGTTACTGAC-1 contig 2 = TGGGGATGCT...
umi AAGTCGCCAC = 201 reads: +445 validated
umi ACCTCTTGGC = 261 reads: +445 validated
umi ATTTCATGCT = 168 reads: +445 validated
umi CACGCCTTTG = 410 reads: +445 validated
umi CATATTTCCA = 135 reads: +445 validated
umi CCGTGACCAG = 274 reads: +445 validated
umi CTCCGCACTG = 59 reads: +384 -61 non-validated
umi CTGCTATACT = 284 reads: +445 validated
umi CTTATACCCC = 574 reads: -275X +170 invalidated
umi GACAGTTCGC = 290 reads: +445 validated
umi GACTGGACCG = 215 reads: +445 validated
umi GGTGTCCTTC = 276 reads: +445 validated
umi GTATGCATAC = 381 reads: -406 +1 -2X +8 -1XX +7 -1XX +1 -1XX +12 -1XX +4 invalidated
umi GTCCTGGCTT = 87 reads: +431 -1X +2 -11 invalidated
umi TAAGCCGTCC = 321 reads: +432 -13 non-validated
umi TAATACTGGA = 245 reads: +445 validated
umi TAATTGTTCT = 221 reads: +445 validated
umi TAGGGCCTCA = 151 reads: +384 -1 +1 -2 +33 -1 +23 non-validated
umi TGACTGTAAG = 255 reads: +425 -1 +4 -1 +2 -2 +10 non-validated
umi TGGATGTTCG = 292 reads: +430 -1 +1 -13 non-validated
umi TTCACGCATT = 279 reads: +424 -1 +20 non-validated
umi TTCAGCGTCT = 194 reads: +445 validated

GOOD CONTIGS

TIG 1[bases=638]
0-36 ==> 0-36 on |330|IGLV1-51|5'UTR| [len=36] (mis=0)
36-389 ==> 0-353 on |331|IGLV1-51|L-REGION+V-REGION| [len=353] (mis=1)
389-427 ==> 0-38 on |311|IGLJ2|J-REGION| [len=38] (mis=1)
427-638 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 18 umis using 536 reads
cdr3 = CGTWDSSLSAEVVF at 357, score = 7 + 8
umis assigned: [25, 66, 70, 79, 82, 145, 167, 183, 185, 199] and 19 others
of which 29 are surviving nonsolos
reads assigned: 11643
start codons at 36, 190, 241, 365
confident = true

TIG 2[bases=537]
21-398 ==> 0-377 on |190|IGHV4-39|L-REGION+V-REGION| [len=377] (mis=1)
416-466 ==> 0-50 on |53|IGHJ3|J-REGION| [len=50] (mis=3)
466-537 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 15 umis using 303 reads
cdr3 = CARRLRFGEGSAFDIW at 387, score = 9 + 8
umis assigned: [40, 77, 220, 244, 274, 324, 390, 404, 408, 428] and 12 others
of which 22 are surviving nonsolos
reads assigned: 5520
start codons at 5, 21, 30, 42, 86, 447
confident = true

REJECT CONTIGS

TIG 1[bases=308]
11-36 ==> 4932-4957 on rc of segment before IGLL1 exon 1 [len=6445] (mis=0)
59-97 ==> 0-38 on |309|IGLJ1|J-REGION| [len=38] (mis=0)
95-143 ==> 6397-6445 on rc of segment before IGLL1 exon 1 [len=6445] (mis=4)
97-308 ==> 0-211 on |305|IGLC1|C-REGION| [len=317] (mis=0)
umis assigned: [139, 467, 717]
of which 3 are surviving nonsolos
reads assigned: 2265
start codons at 61, 229
confident = false
did not find CDR3

TIG 2[bases=560]
10-80 ==> 5667-5737 on segment before IGKV1OR2-6 exon 1 [len=5879] (mis=1)
32-383 ==> 0-351 on |223|IGKV1-17|L-REGION+V-REGION| [len=351] (mis=0)
387-424 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=0)
424-560 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
umis assigned: [29, 204, 208, 241, 308, 339, 523, 590, 601, 668] and 2 others
of which 12 are surviving nonsolos
reads assigned: 3165
start codons at 32, 38, 107, 189, 243, 466
confident = false
did not find CDR3
now this is a cell
paired!

GCAGACACGGCTGTGTATTACTGTGCGAGACGTTTAAGGTTCGGGGAGGGGAGTGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG <==> CTCCAGACTGGGGACGAGGCCGATTATTACTGCGGAACATGGGATAGCAG...

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BARCODE 8.4272 = AGAGTGGGTTGGTAAA-1

using 201 reads

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

graph has 80 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[201]
surviving nonsolo ucounts = 1[201]
ids = [0]

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

UMI info for barcode AGAGTGGGTTGGTAAA-1 contig 1 = GATCAGGACT...
umi AATGGAACGC = 189 reads: +397 validated

GOOD CONTIGS

TIG 1[bases=437]
0-30 ==> 0-30 on |264|IGKV2-28|5'UTR| [len=30] (mis=0)
30-390 ==> 0-360 on |265|IGKV2-28|L-REGION+V-REGION| [len=360] (mis=1)
388-427 ==> 0-39 on |214|IGKJ2|J-REGION| [len=39] (mis=2)
junction support: 1 umis using 22 reads
cdr3 = CMQALQTPCSF at 366, score = 9 + 7
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 187
start codons at 30, 63, 99, 187, 349, 369
confident = false
NOT paired!

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BARCODE 8.4277 = AGAGTGGTCAAGATCC-1

using 305 reads

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

graph has 126 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 4[2, 4, 8, 285]
surviving nonsolo ucounts = 1[285]
ids = [0]

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

UMI info for barcode AGAGTGGTCAAGATCC-1 contig 1 = AGACCCAGTC...
umi AACGGTATAG = 271 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=494]
0-20 ==> 161-181 on |232|IGKV1-5|5'UTR| [len=181] (mis=0)
20-371 ==> 0-351 on |233|IGKV1-5|L-REGION+V-REGION| [len=351] (mis=0)
370-408 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=3)
408-494 ==> 0-86 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 46 reads
cdr3 = CQQYNSYSPTF at 347, score = 8 + 8
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 268
start codons at 20, 26, 82, 95, 327, 450
confident = false
NOT paired!

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BARCODE 8.4281 = AGAGTGGTCATAAAGG-1

using 385 reads

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

graph has 164 edges initially, 2 edges after simplification

total ucounts = 15
nonsolo ucounts = 8[2, 3, 5, 8, 10, 12, 20, 318]
surviving nonsolo ucounts = 1[318]
ids = [6]

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

UMI info for barcode AGAGTGGTCATAAAGG-1 contig 1 = GGGAGGAACT...
umi CTTCGGAAGG = 318 reads: +382 validated

GOOD CONTIGS

TIG 1[bases=553]
0-35 ==> 12-47 on |278|IGKV3-11|5'UTR| [len=47] (mis=0)
35-380 ==> 0-345 on |279|IGKV3-11|L-REGION+V-REGION| [len=345] (mis=3)
380-417 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=0)
417-553 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 51 reads
cdr3 = CQQRSNWPLTF at 356, score = 9 + 9
umis assigned: [6]
of which 1 are surviving nonsolos
reads assigned: 315
start codons at 35, 243, 459
confident = false
NOT paired!

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BARCODE 8.4289 = AGAGTGGTCGCAGGCT-1

using 32 reads

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

graph has 40 edges initially, 2 edges after simplification

total ucounts = 13
nonsolo ucounts = 4[2^3, 17]
surviving nonsolo ucounts = 1[17]
ids = [8]

====================================================================================
NOT paired!
sorting bam, mem = 0.17
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...

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219.333 seconds used processing barcodes, peak mem = 0.33
