[stdout]

starting vdj_asm_asm, mem = 0.01
available mem = 844.22 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/chnk047-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/chnk047-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.chnk047.ucc6a7a72ce
n50_n50_rpu = 288

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BARCODE 47.0 = CTCCTAGAGCGTTGCC-1

using 22003 reads

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

graph has 5591 edges initially, 124 edges after simplification

total ucounts = 320
nonsolo ucounts = 186[2^38, 3^22, 4^14, 5^12, 6^5, 7^8, 8^2, 10^3, 11, 28, 34, 48, 54, 59, 62, 65, 74, 91, 98, 105, 113, 114, 116, 122^2, 127, 131, 139, 142, 143, 155, 158, 159, 169^2, 171, 175, 176, 180, 182, 183^3, 186, 187, 188, 193, 200, 202^2, 204, 206, 208, 210, 212, 214, 216, 217, 218, 224, 226, 229, 230, 231^2, 233, 236^3, 237, 240, 242, 246, 254, 271, 283, 344, 345, 359, 372, 395, 635, 669, 683, 771, 805, 869, 1069, 1110, 1464]
surviving nonsolo ucounts = 76[28, 48, 54, 59, 62, 65, 105, 113, 114, 116, 122^2, 127, 139, 142, 143, 155, 158, 159, 169^2, 171, 175, 176, 180, 182, 183^3, 186, 187, 188, 193, 200, 202^2, 204, 206, 208, 210, 212, 214, 216, 217, 218, 224, 226, 229, 230, 231^2, 233, 236^3, 237, 240, 242, 246, 254, 271, 283, 344, 345, 359, 372, 395, 635, 669, 683, 771, 805, 869, 1069, 1110, 1464]
ids = [56, 26, 95, 229, 62, 258, 148, 161, 248, 281, ...]

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

UMI info for barcode CTCCTAGAGCGTTGCC-1 contig 1 = AGCTTCAGCT...
umi AAAGCCGAGG = 236 reads: +391 validated
umi AAATCCTTGG = 180 reads: +391 validated
umi AACATATGCC = 233 reads: +391 validated
umi AACTTGGCTG = 186 reads: +391 validated
umi AAGGCTTCGG = 256 reads: +391 validated
umi AATGGATCAA = 204 reads: +391 validated
umi ACAGCCTTTA = 168 reads: +391 validated
umi ACATATTCAC = 206 reads: +391 validated
umi ACTATTCCTC = 241 reads: +391 validated
umi AGACTCGATG = 124 reads: +391 validated
umi AGTTATCTCG = 188 reads: +391 validated
umi ATATTACTGT = 179 reads: +391 validated
umi ATATTATTCG = 400 reads: +391 validated
umi ATATTGCCAC = 248 reads: +391 validated
umi ATCGTCACCT = 30 reads: -355X +1 -1X +1 -4X +2 -3XX +1 -1XX +1 -4XX +1 -3XX +1 -1XX +1 -3XX +1 -4XX +2 invalidated
umi ATGGCTGCTC = 220 reads: +391 validated
umi CATAGTACTA = 153 reads: +391 validated
umi CGAGAGAATA = 226 reads: +391 validated
umi CGTTGAGTTT = 174 reads: +391 validated
umi CTGAATCCCT = 220 reads: +391 validated
umi CTGCGTATCC = 170 reads: +391 validated
umi CTGCTTTCCC = 233 reads: +391 validated
umi CTGGATCCCT = 137 reads: +391 validated
umi GAGCACGTTG = 103 reads: +286 -1 +29 -12 +56 -7 non-validated
umi GCGCGAGGTT = 184 reads: +391 validated
umi GCGTGTACTT = 212 reads: +391 validated
umi GGATATTTAC = 235 reads: +391 validated
umi GGCGTTGTAT = 181 reads: +391 validated
umi GTAGCAGCCT = 43 reads: -355X +1 -1X +1 -4XX +2 -3XX +1 -1XX +1 -4XX +1 -3XX +1 -1XX +1 -3XX +1 -4XX +2 invalidated
umi GTCACGATAC = 186 reads: +391 validated
umi GTCACTCTCG = 218 reads: +391 validated
umi GTTACGAACA = 212 reads: +391 validated
umi TAAGTGGATC = 177 reads: +391 validated
umi TCAATGTTCC = 207 reads: +391 validated
umi TCACTGGGCC = 372 reads: +391 validated
umi TCCGGTGGCG = 159 reads: +391 validated
umi TCGGGGGGCA = 233 reads: +391 validated
umi TGCTCACCAC = 220 reads: +391 validated
umi TGTGTGCGTG = 146 reads: +391 validated
umi TTTATTCGTA = 169 reads: +391 validated
umi TTTCGTCTCT = 241 reads: +391 validated
umi TTTCTCCCGC = 237 reads: +391 validated
umi TTTTTGGGTC = 230 reads: +391 validated

UMI info for barcode CTCCTAGAGCGTTGCC-1 contig 2 = ATAAAATCTG...
umi AAAAACTGTC = 209 reads: +382 validated
umi AAGGTTGGTA = 145 reads: +382 validated
umi AATCCTCCCT = 263 reads: +382 validated
umi CACAGGTTCA = 55 reads: +382 validated
umi CCATGTCGCC = 200 reads: +382 validated
umi CTGCCCCTCT = 109 reads: +382 validated
umi GCTACATACC = 359 reads: +382 validated
umi GGCCTCATTA = 202 reads: +382 validated
umi TCAAGTGACT = 114 reads: +356 -1X +25 invalidated

UMI info for barcode CTCCTAGAGCGTTGCC-1 contig 3 = ACCCAAAAAC...
umi AATGTGTCTA = 45 reads: +334 -1 +80 -1 +14 non-validated
umi AGCTTTTGTT = 28 reads: +35 -1 +82 -1XX +218 -56 +37 invalidated
umi CGTCTCTACT = 200 reads: +430 validated
umi GCACGCCACT = 240 reads: +430 validated
umi TACTACACTC = 59 reads: +430 validated
umi TCCATACCTC = 64 reads: +430 validated
umi TCTTGAGCTT = 126 reads: -21 +409 non-validated
umi TCTTTTAGTC = 341 reads: -7X +423 invalidated
umi TGCGACCGGC = 117 reads: +374 -4 +52 non-validated
umi TTCGTAGCTT = 124 reads: +430 validated

GOOD CONTIGS

TIG 1[bases=649]
0-47 ==> 67-114 on |322|IGLV1-44|5'UTR| [len=114] (mis=0)
47-400 ==> 0-353 on |323|IGLV1-44|L-REGION+V-REGION| [len=353] (mis=1)
400-438 ==> 0-38 on |309|IGLJ1|J-REGION| [len=38] (mis=0)
438-649 ==> 0-211 on |305|IGLC1|C-REGION| [len=317] (mis=0)
junction support: 40 umis using 1233 reads
cdr3 = CAAWDDSLNGHYVF at 368, score = 8 + 8
umis assigned: [2, 5, 9, 14, 17, 25, 28, 30, 41, 47] and 33 others
of which 43 are surviving nonsolos
reads assigned: 8421
start codons at 47, 351, 376, 381, 393, 402, 570
confident = true

TIG 2[bases=581]
0-63 ==> 0-63 on |297|IGKV5-2|5'UTR| [len=63] (mis=0)
63-408 ==> 0-345 on |298|IGKV5-2|L-REGION+V-REGION| [len=345] (mis=0)
408-445 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=0)
445-581 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 9 umis using 221 reads
cdr3 = CLQHDNFPLTF at 384, score = 8 + 9
umis assigned: [0, 18, 23, 95, 113, 148, 175, 188, 248]
of which 9 are surviving nonsolos
reads assigned: 1620
start codons at 63, 153, 211, 214, 219, 322, 367, 394, 487
confident = true

TIG 3[bases=555]
0-54 ==> 5-59 on |64|IGHV1-18|5'UTR| [len=59] (mis=0)
54-407 ==> 0-353 on |65|IGHV1-18|L-REGION+V-REGION| [len=353] (mis=1)
411-438 ==> 0-27 on |18|IGHD3-10|D-REGION| [len=27] (mis=2)
436-484 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=4)
484-555 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 8 umis using 103 reads
cdr3 = CARERELLWFRELLSFDYW at 396, score = 8 + 7
umis assigned: [26, 56, 132, 165, 229, 258, 271, 273, 281, 299]
of which 10 are surviving nonsolos
reads assigned: 1326
start codons at 54, 205, 252, 257, 274, 289, 318, 351, 419
confident = true

REJECT CONTIGS

TIG 1[bases=362]
1-67 ==> 3084-3150 on segment before IGLJ5 exon 1 [len=3161] (mis=7)
113-151 ==> 0-38 on |311|IGLJ2|J-REGION| [len=38] (mis=0)
151-362 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
umis assigned: [29, 35, 55, 63, 118, 147, 184, 244, 256, 301]
of which 10 are surviving nonsolos
reads assigned: 8333
start codons at 1, 9, 94
confident = false
did not find CDR3

TIG 2[bases=569]
0-52 ==> 0-52 on |206|IGHV6-1|5'UTR| [len=52] (mis=1)
52-417 ==> 0-365 on |207|IGHV6-1|L-REGION+V-REGION| [len=365] (mis=0)
450-498 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=0)
498-569 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
umis assigned: [34, 62, 112, 293]
of which 4 are surviving nonsolos
reads assigned: 607
start codons at 52, 96, 293, 299
confident = false
frameshifted full length stopped transcript of length 569
did not find CDR3
now this is a cell
NOT paired!

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BARCODE 47.4 = CTCCTAGAGCTCCCAG-1

using 3790 reads

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

graph has 3140 edges initially, 38 edges after simplification

total ucounts = 667
nonsolo ucounts = 364[2^131, 3^74, 4^35, 5^36, 6^27, 7^19, 8^8, 9^5, 10^3, 11^5, 12^2, 13, 14, 15^2, 21, 48^2, 115, 125^2, 128, 129, 132, 170, 186, 191, 218, 236, 241]
surviving nonsolo ucounts = 16[5, 11, 48^2, 115, 125^2, 128, 129, 132, 170, 186, 191, 218, 236, 241]
ids = [460, 368, 110, 571, 545, 169, 412, 498, 16, 559, ...]

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

UMI info for barcode CTCCTAGAGCTCCCAG-1 contig 1 = GGAGTCTCCC...
umi CTCATGGTGT = 168 reads: +442 validated
umi GAACAATGTG = 197 reads: +123 -1XX +1 -3XX +1 -4XX +1 -8XX +1 -82XX +1 -5X +2 -12X +2 -4XX +1 -3XX +1 -2XX +184 invalidated
umi TATCCACATT = 117 reads: +442 validated
umi TCGGTTTTAT = 109 reads: +396 -1 +15 -30 non-validated
umi TTTTTACATA = 197 reads: +427 -1 +14 non-validated

UMI info for barcode CTCCTAGAGCTCCCAG-1 contig 2 = GGCGCCAGGG...
umi ACTAACGGGT = 228 reads: +391 validated
umi GGGACAATGA = 202 reads: +391 validated

GOOD CONTIGS

TIG 1[bases=572]
0-59 ==> 0-59 on |202|IGHV5-51|5'UTR| [len=59] (mis=1)
59-412 ==> 0-353 on |203|IGHV5-51|L-REGION+V-REGION| [len=353] (mis=9)
438-501 ==> 0-63 on |59|IGHJ6|J-REGION| [len=63] (mis=5)
501-572 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 4 umis using 70 reads
cdr3 = CARGPYCSSTDPTCDYFYYMDVW at 401, score = 8 + 7
umis assigned: [260, 314, 498, 545, 666]
of which 5 are surviving nonsolos
reads assigned: 763
start codons at 59, 233, 257, 392, 458
confident = true

TIG 2[bases=501]
0-31 ==> 3-34 on |385|IGLV7-43|5'UTR| [len=34] (mis=0)
31-382 ==> 0-351 on |386|IGLV7-43|L-REGION+V-REGION| [len=351] (mis=4)
384-422 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=2)
422-501 ==> 0-79 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 2 umis using 75 reads
cdr3 = CLLYYVGAQLGVF at 355, score = 8 + 8
umis assigned: [52, 402]
of which 2 are surviving nonsolos
reads assigned: 423
start codons at 31, 368
confident = true
now this is a cell
paired!

TGTGCGAGAGGACCGTATTGTAGTAGTACTGACCCAACCTGCGACTACTTCTACTACATGGACGTCTGGGGCAAAGGGACCACGGTCACCGTCTCCTCAG <==> GGTGTGCAACCTGAGGACGAGGCTGAGTATTACTGCCTGCTCTACTATGTTGGTGCTCAGCTAGGGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG

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

BARCODE 47.10 = CTCCTAGAGGATGGTC-1

using 4401 reads

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

graph has 3450 edges initially, 56 edges after simplification

total ucounts = 748
nonsolo ucounts = 408[2^139, 3^83, 4^56, 5^33, 6^31, 7^17, 8^14, 9^7, 10^4, 11^3, 13^3, 14, 15, 17, 21, 25, 29, 53, 105, 124, 143, 158, 198, 241, 247, 253, 299, 300, 311]
surviving nonsolo ucounts = 13[25, 53, 105, 124, 143, 158, 198, 241, 247, 253, 299, 300, 311]
ids = [247, 11, 624, 160, 589, 739, 26, 134, 62, 137, ...]

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

UMI info for barcode CTCCTAGAGGATGGTC-1 contig 1 = GGAGTCAGAC...
umi ACAAATTGCC = 243 reads: +388 validated
umi AGGTGTGGTT = 312 reads: +388 validated
umi AGTATAACCC = 239 reads: +388 validated
umi TACTTGCGTC = 299 reads: +388 validated
umi TCCACACCGT = 299 reads: +388 validated

UMI info for barcode CTCCTAGAGGATGGTC-1 contig 2 = CAGCTCTGGG...
umi AAGATTGTCC = 198 reads: +365 -27 +10 -1 +18 non-validated
umi AGTCTAGGCT = 255 reads: +421 validated
umi ATCAGATGGG = 124 reads: +407 -14 non-validated
umi CCAACTCTTC = 23 reads: +183 -9 +78 -1 +1 -3 +27 -1 +28 -90 non-validated
umi TCATTAGTAA = 141 reads: +411 -10 non-validated
umi TCTCTGCATC = 102 reads: +406 -15 non-validated
umi TTTTAGCGGA = 154 reads: +404 -17 non-validated

GOOD CONTIGS

TIG 1[bases=550]
0-26 ==> 155-181 on |232|IGKV1-5|5'UTR| [len=181] (mis=0)
26-377 ==> 0-351 on |233|IGKV1-5|L-REGION+V-REGION| [len=351] (mis=1)
376-414 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=1)
414-550 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 5 umis using 226 reads
cdr3 = CQQYNSYFWTF at 353, score = 8 + 8
umis assigned: [62, 126, 134, 539, 593]
of which 5 are surviving nonsolos
reads assigned: 1375
start codons at 26, 32, 88, 101, 333, 456
confident = true

TIG 2[bases=572]
0-80 ==> 0-80 on |125|IGHV3-33|5'UTR| [len=80] (mis=0)
80-431 ==> 0-351 on |126|IGHV3-33|L-REGION+V-REGION| [len=351] (mis=0)
454-501 ==> 14-61 on |58|IGHJ6|J-REGION| [len=61] (mis=0)
501-572 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 1 umis using 13 reads
cdr3 = CARDYDLFDGGYMDVW at 422, score = 9 + 7
umis assigned: [26, 137, 160, 247, 589, 624, 739]
of which 7 are surviving nonsolos
reads assigned: 980
start codons at 80, 231, 236, 289, 294, 297, 315, 383, 458
confident = true
now this is a cell
paired!

GAGGACACGGCTGTGTATTACTGTGCGAGAGATTACGATCTATTTGACGGGGGCTACATGGACGTCTGGGGCAAAGGGACCACGGTCACCGTCTCCTCAG <==> ATCAGCAGCCTGCAGCCTGATGATTTTGCAACTTATTACTGCCAACAGTATAATAGTTATTTTTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC

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

BARCODE 47.27 = CTCCTAGAGTTGTAGA-1

using 289 reads

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

graph has 76 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 2[4, 279]
surviving nonsolo ucounts = 1[279]
ids = [7]

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

UMI info for barcode CTCCTAGAGTTGTAGA-1 contig 1 = GAATCAGTCC...
umi TTCTTCCGGA = 277 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=549]
0-25 ==> 2-27 on |222|IGKV1-17|5'UTR| [len=27] (mis=0)
25-376 ==> 0-351 on |223|IGKV1-17|L-REGION+V-REGION| [len=351] (mis=19)
375-413 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=1)
413-549 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=1)
junction support: 1 umis using 40 reads
cdr3 = CLQYSSSPWTF at 352, score = 9 + 8
umis assigned: [7]
of which 1 are surviving nonsolos
reads assigned: 275
start codons at 25, 31, 100, 236, 455
confident = false
NOT paired!

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

BARCODE 47.36 = CTCCTAGCAATTGCTG-1

using 326 reads

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

graph has 124 edges initially, 2 edges after simplification

total ucounts = 5
nonsolo ucounts = 2[3, 320]
surviving nonsolo ucounts = 1[320]
ids = [1]

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

UMI info for barcode CTCCTAGCAATTGCTG-1 contig 1 = ATCATCCAAC...
umi CATAATTCTC = 301 reads: +430 validated

GOOD CONTIGS

TIG 1[bases=529]
0-58 ==> 246-304 on |78|IGHV1-46|5'UTR| [len=304] (mis=1)
58-411 ==> 0-353 on |79|IGHV1-46|L-REGION+V-REGION| [len=353] (mis=20)
440-488 ==> 13-61 on |58|IGHJ6|J-REGION| [len=61] (mis=1)
488-529 ==> 0-41 on |1|IGHA1|C-REGION| [len=1058] (mis=0)
junction support: 1 umis using 38 reads
cdr3 = CARGDRRAAAFYYHYMDVW at 400, score = 8 + 7
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 296
start codons at 58, 214, 256, 322, 355, 445
confident = false
NOT paired!

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

BARCODE 47.53 = CTCCTAGCACGAGGTA-1

using 323 reads

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

graph has 118 edges initially, 2 edges after simplification

total ucounts = 4
nonsolo ucounts = 2[2, 319]
surviving nonsolo ucounts = 1[319]
ids = [2]

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

UMI info for barcode CTCCTAGCACGAGGTA-1 contig 1 = GACCCAGTCA...
umi TTCCACTAAG = 320 reads: +382 validated

GOOD CONTIGS

TIG 1[bases=537]
0-19 ==> 28-47 on |218|IGKV1-12|5'UTR| [len=47] (mis=0)
19-370 ==> 0-351 on |219|IGKV1-12|L-REGION+V-REGION| [len=351] (mis=10)
364-401 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=2)
401-537 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 36 reads
cdr3 = CQQAKSFSF at 346, score = 9 + 7
umis assigned: [2]
of which 1 are surviving nonsolos
reads assigned: 316
start codons at 19, 25, 81, 94, 230, 443
confident = false
NOT paired!

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

BARCODE 47.62 = CTCCTAGCAGATCTGT-1

using 10165 reads

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

graph has 8082 edges initially, 52 edges after simplification

total ucounts = 1772
nonsolo ucounts = 950[2^336, 3^223, 4^127, 5^70, 6^59, 7^31, 8^24, 9^23, 10^8, 11^7, 12^5, 13^4, 14^3, 15^2, 16^2, 20, 22, 24, 35, 104, 117, 130, 139, 140, 143, 158^2, 164, 231, 243, 266, 283, 296, 310, 323, 340, 345, 347, 354, 460, 649]
surviving nonsolo ucounts = 22[35, 104, 117, 130, 139, 140, 158^2, 164, 231, 243, 266, 283, 296, 310, 323, 340, 345, 347, 354, 460, 649]
ids = [1242, 1742, 1546, 964, 228, 923, 504, 1677, 1183, 1501, ...]

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

UMI info for barcode CTCCTAGCAGATCTGT-1 contig 1 = GAGCTACAAC...
umi AGCCGAGTCT = 54 reads: +52 -3XX +1 -1X +335 -8 invalidated
umi ATTGGAGTGA = 244 reads: +400 validated
umi CATATACTTA = 71 reads: +31 -6X +1 -2XX +3 -1XX +1 -1XX +1 -1XX +221 -5X +2 -4X +2 -6X +41 -15 +56 invalidated
umi CTAGCGTGTG = 307 reads: +400 validated
umi GCACTTGCTA = 341 reads: +400 validated
umi GCATAACAGC = 323 reads: +400 validated
umi GTGAAGCTAT = 67 reads: +43 -1X +8 -3 +264 -81 invalidated
umi GTGGGCGCAA = 355 reads: +400 validated
umi TAAACGTCCC = 34 reads: +329 -19 +30 -1 +21 non-validated
umi TCTGCCTCCA = 297 reads: +400 validated
umi TCTTATGTCT = 227 reads: +400 validated
umi TTTCAAGTGA = 343 reads: +400 validated

UMI info for barcode CTCCTAGCAGATCTGT-1 contig 2 = AGCTCTGAGA...
umi AAAAGTGGGG = 261 reads: +424 validated
umi GATATGTGTT = 139 reads: +424 validated
umi GCATTCTCGC = 130 reads: +415 -9 non-validated
umi TCGGAGTGAA = 346 reads: +424 validated
umi TGCCAATGGG = 118 reads: +424 validated
umi TTCGGGTACT = 162 reads: +366 -5 +1 -1 +51 non-validated
umi TTTCCCGGTG = 105 reads: +384 -40 non-validated
umi TTTTACCCCT = 419 reads: -394X +1 -1XX +1 -4XX +1 -1XX +2 -7XX +1 -5XX +1 -2XX +1 -1XX +1 invalidated

GOOD CONTIGS

TIG 1[bases=566]
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=16)
391-430 ==> 0-39 on |214|IGKJ2|J-REGION| [len=39] (mis=6)
430-566 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 8 umis using 347 reads
cdr3 = CQQYYDTPRTF at 369, score = 9 + 8
umis assigned: [228, 396, 504, 745, 946, 953, 1183, 1197, 1242, 1492] and 2 others
of which 12 are surviving nonsolos
reads assigned: 2633
start codons at 30, 99, 352, 382, 472
confident = true

TIG 2[bases=605]
0-79 ==> 0-79 on |121|IGHV3-23|5'UTR| [len=79] (mis=1)
79-360 ==> 0-281 on |122|IGHV3-23|L-REGION+V-REGION| [len=353] (mis=33)
481-503 ==> 30-52 on |49|IGHJ1|J-REGION| [len=52] (mis=1)
503-605 ==> 0-102 on |6|IGHD|C-REGION| [len=1289] (mis=0)
junction support: 4 umis using 53 reads
cdr3 = CVKDYRGGRGWNFYDSW at 421, score = 8 + 7
umis assigned: [3, 923, 964, 1454, 1546, 1677, 1742, 1753]
of which 8 are surviving nonsolos
reads assigned: 1649
start codons at 79, 226, 235, 286, 302, 370, 461, 521, 582
confident = true
now this is a cell
paired!

GACACGGCCCTATACTATTGTGTGAAGGACTATCGTGGGGGCAGAGGCTGGAACTTTTATGACTCTTGGGGCCGGGGGACCCTGGTCACCGTCTCCTCGG <==> ATCAGCAGCCTGCAGCCTGAAGATGTGGCAGTTTATTACTGTCAGCAATATTATGATACTCCTCGAACTTTTGGCCGGGGGACCAAGCTGGAGATCAAAC

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

BARCODE 47.63 = CTCCTAGCAGCGATCC-1

using 824 reads

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

graph has 324 edges initially, 4 edges after simplification

total ucounts = 16
nonsolo ucounts = 7[2^3, 3, 215, 290, 301]
surviving nonsolo ucounts = 3[215, 290, 301]
ids = [5, 8, 12]

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

UMI info for barcode CTCCTAGCAGCGATCC-1 contig 1 = AGCTCTGAGA...
umi TAGTTCCTAA = 299 reads: +424 validated

UMI info for barcode CTCCTAGCAGCGATCC-1 contig 2 = TCAGCTTCAG...
umi ATCTCAGCCC = 212 reads: +388 validated
umi CTTTAAAGTG = 290 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=516]
0-79 ==> 0-79 on |119|IGHV3-21|5'UTR| [len=79] (mis=0)
79-432 ==> 0-353 on |120|IGHV3-21|L-REGION+V-REGION| [len=353] (mis=18)
456-503 ==> 16-63 on |737|IGHJ6|J-REGION| [len=63] (mis=1)
junction support: 1 umis using 30 reads
cdr3 = CARDRAATARLGGMDVW at 421, score = 9 + 7
umis assigned: [12]
of which 1 are surviving nonsolos
reads assigned: 292
start codons at 79, 230, 235, 382, 460
confident = true

TIG 2[bases=580]
0-49 ==> 65-114 on |322|IGLV1-44|5'UTR| [len=114] (mis=0)
49-402 ==> 0-353 on |323|IGLV1-44|L-REGION+V-REGION| [len=353] (mis=15)
399-437 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=3)
437-580 ==> 0-143 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 2 umis using 73 reads
cdr3 = CASWDDSLRGRVF at 370, score = 8 + 8
umis assigned: [5, 8]
of which 2 are surviving nonsolos
reads assigned: 495
start codons at 49, 203, 353, 378, 383
confident = true
now this is a cell
paired!

GACACGGCTGTGTATTACTGTGCGAGAGATCGGGCGGCGACAGCTCGTCTTGGCGGTATGGACGTCTGGGGCCAAGGGACCGCGGTCACCGTCTCCTCAG <==> GGGCTCCAGTCTGAGGATGAGGCTGCTTATTACTGTGCATCATGGGATGACAGCCTGCGTGGTCGGGTGTTTGGCGGTGGGACCAAGCTGACCGTCCTAG

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

BARCODE 47.64 = CTCCTAGCAGCGTTCG-1

using 315 reads

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

graph has 154 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2^2, 5, 304]
surviving nonsolo ucounts = 1[304]
ids = [3]

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

UMI info for barcode CTCCTAGCAGCGTTCG-1 contig 1 = GGGGATCAGT...
umi GAGTCCATCT = 307 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=551]
0-27 ==> 0-27 on |222|IGKV1-17|5'UTR| [len=27] (mis=2)
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)
415-551 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 47 reads
cdr3 = CLQYSSSPWTF at 354, score = 9 + 8
umis assigned: [3]
of which 1 are surviving nonsolos
reads assigned: 300
start codons at 27, 33, 102, 238, 457
confident = false
NOT paired!

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

BARCODE 47.72 = CTCCTAGCATAACCTG-1

using 88 reads

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

graph has 97 edges initially, 2 edges after simplification

total ucounts = 17
nonsolo ucounts = 12[2^2, 4, 5^3, 6^2, 10, 11, 12, 15]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 47.96 = CTCCTAGGTACCCAAT-1

using 381 reads

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

graph has 140 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[2, 378]
surviving nonsolo ucounts = 1[378]
ids = [2]

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

UMI info for barcode CTCCTAGGTACCCAAT-1 contig 1 = GGGGATCAGT...
umi CTATAGTACG = 355 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=499]
0-27 ==> 0-27 on |222|IGKV1-17|5'UTR| [len=27] (mis=2)
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)
415-499 ==> 0-84 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 74 reads
cdr3 = CLQYSSSPWTF at 354, score = 9 + 8
umis assigned: [2]
of which 1 are surviving nonsolos
reads assigned: 348
start codons at 27, 33, 102, 238, 457
confident = false
NOT paired!

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

BARCODE 47.99 = CTCCTAGGTACGCTGC-1

using 237 reads

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

graph has 110 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[237]
surviving nonsolo ucounts = 1[237]
ids = [0]

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

UMI info for barcode CTCCTAGGTACGCTGC-1 contig 1 = GGGGTCACAA...
umi AAACTTAATC = 234 reads: +394 validated

GOOD CONTIGS

TIG 1[bases=529]
0-38 ==> 124-162 on |342|IGLV2-23|5'UTR| [len=162] (mis=0)
38-378 ==> 0-340 on |343|IGLV2-23|L-REGION+V-REGION| [len=340] (mis=5)
394-432 ==> 0-38 on |309|IGLJ1|J-REGION| [len=38] (mis=1)
432-529 ==> 0-97 on |305|IGLC1|C-REGION| [len=317] (mis=0)
junction support: 1 umis using 50 reads
cdr3 = CCSYAGSSTIPYVL at 362, score = 8 + 7
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 229
start codons at 38, 239, 246, 372, 396
confident = false
NOT paired!

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

BARCODE 47.105 = CTCCTAGGTATCAGTC-1

using 280 reads

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

graph has 158 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 3[2, 3, 269]
surviving nonsolo ucounts = 1[269]
ids = [6]

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

UMI info for barcode CTCCTAGGTATCAGTC-1 contig 1 = GAGCTACAAC...
umi GTCCGTGCAT = 264 reads: +400 validated

GOOD CONTIGS

TIG 1[bases=523]
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=5)
392-430 ==> 0-38 on |215|IGKJ3|J-REGION| [len=38] (mis=1)
430-523 ==> 0-93 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 35 reads
cdr3 = CQQYYSTPFTF at 369, score = 9 + 8
umis assigned: [6]
of which 1 are surviving nonsolos
reads assigned: 257
start codons at 30, 99, 352, 472
confident = false
NOT paired!

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

BARCODE 47.107 = CTCCTAGGTATGAATG-1

using 183 reads

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

graph has 60 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 5[2^2, 3^2, 170]
surviving nonsolo ucounts = 1[170]
ids = [4]

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

UMI info for barcode CTCCTAGGTATGAATG-1 contig 1 = GGAGTCAGAC...
umi CAATTGGGGC = 153 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=426]
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=17)
377-414 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=3)
junction support: 1 umis using 20 reads
cdr3 = CQQYNSYALSF at 353, score = 8 + 7
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 153
start codons at 26, 32, 88, 101, 237, 240, 333, 372
confident = false
NOT paired!

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

BARCODE 47.124 = CTCCTAGGTGCGATAG-1

using 11 reads

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

graph has 14 edges initially, 2 edges after simplification

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

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

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

BARCODE 47.128 = CTCCTAGGTGTAACGG-1

using 251 reads

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

graph has 112 edges initially, 2 edges after simplification

total ucounts = 1
nonsolo ucounts = 1[251]
surviving nonsolo ucounts = 1[251]
ids = [0]

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

UMI info for barcode CTCCTAGGTGTAACGG-1 contig 1 = AAAAACCACA...
umi CTCGTAGTGT = 244 reads: +436 validated

GOOD CONTIGS

TIG 1[bases=572]
0-50 ==> 9-59 on |64|IGHV1-18|5'UTR| [len=59] (mis=1)
50-403 ==> 0-353 on |65|IGHV1-18|L-REGION+V-REGION| [len=353] (mis=22)
452-486 ==> 12-46 on |54|IGHJ4|J-REGION| [len=46] (mis=0)
486-572 ==> 0-86 on |1|IGHA1|C-REGION| [len=1058] (mis=1)
junction support: 1 umis using 28 reads
cdr3 = CARDKHFRDPYYHYSGALDHW at 392, score = 7 + 7
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 238
start codons at 50, 248, 253, 270, 314, 347, 540
confident = false
NOT paired!

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

BARCODE 47.129 = CTCCTAGGTGTGGCTC-1

using 127 reads

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

graph has 82 edges initially, 2 edges after simplification

total ucounts = 8
nonsolo ucounts = 5[2^2, 3^2, 114]
surviving nonsolo ucounts = 1[114]
ids = [5]

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

UMI info for barcode CTCCTAGGTGTGGCTC-1 contig 1 = CACAACAGCC...
umi TATAGACTAC = 113 reads: +418 validated

GOOD CONTIGS

TIG 1[bases=538]
0-53 ==> 7-60 on |68|IGHV1-24|5'UTR| [len=60] (mis=0)
53-404 ==> 0-351 on |69|IGHV1-24|L-REGION+V-REGION| [len=351] (mis=44)
423-471 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=6)
471-538 ==> 0-67 on |40|IGHG1|C-REGION| [len=884] (mis=0)
junction support: 1 umis using 13 reads
cdr3 = CATAAGINKWAFDSW at 395, score = 10 + 7
umis assigned: [5]
of which 1 are surviving nonsolos
reads assigned: 111
start codons at 53, 198, 209, 251, 273, 317, 350, 421
confident = false
NOT paired!

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

BARCODE 47.132 = CTCCTAGGTTAAGGGC-1

using 108 reads

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

graph has 126 edges initially, 2 edges after simplification

total ucounts = 23
nonsolo ucounts = 14[3, 4^3, 5^2, 6^3, 8, 10, 11^2, 16]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 47.143 = CTCCTAGGTTGGACCC-1

using 566 reads

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

graph has 180 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 4[2^2, 4, 552]
surviving nonsolo ucounts = 1[552]
ids = [0]

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

REJECT CONTIGS

TIG 1[bases=432]
0-20 ==> 11-31 on |226|IGKV1-33|5'UTR| [len=31] (mis=0)
0-20 ==> 6802-6822 on rc of segment before IGKV3-34 exon 2 [len=6822] (mis=0)
9-67 ==> 5678-5736 on segment before IGKV1OR2-6 exon 1 [len=5879] (mis=1)
20-72 ==> 0-52 on |227|IGKV1-33|L-REGION+V-REGION| [len=351] (mis=1)
26-73 ==> 0-47 on |265|IGKV2-28|L-REGION+V-REGION| [len=360] (mis=6)
78-168 ==> 52-142 on |227|IGKV1-33|L-REGION+V-REGION| [len=351] (mis=8)
212-297 ==> 47-132 on |265|IGKV2-28|L-REGION+V-REGION| [len=360] (mis=8)
296-432 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 547
start codons at 20, 26, 88, 101, 226, 234, 338
confident = false
did not find CDR3
NOT paired!

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

BARCODE 47.149 = CTCCTAGTCAAAGTAG-1

using 267 reads

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

graph has 120 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 3[6^2, 252]
surviving nonsolo ucounts = 1[252]
ids = [4]

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

UMI info for barcode CTCCTAGTCAAAGTAG-1 contig 1 = ATCAGTCCCA...
umi GCTCTTTCGG = 249 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=547]
0-23 ==> 4-27 on |222|IGKV1-17|5'UTR| [len=27] (mis=0)
23-374 ==> 0-351 on |223|IGKV1-17|L-REGION+V-REGION| [len=351] (mis=19)
373-411 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=1)
411-547 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 39 reads
cdr3 = CLQYSSSPWTF at 350, score = 9 + 8
umis assigned: [4]
of which 1 are surviving nonsolos
reads assigned: 245
start codons at 23, 29, 98, 234, 453
confident = false
NOT paired!

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

BARCODE 47.154 = CTCCTAGTCACCGGGT-1

using 611 reads

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

graph has 236 edges initially, 12 edges after simplification

total ucounts = 12
nonsolo ucounts = 10[2^2, 4, 5, 10, 14, 16, 61, 226, 269]
surviving nonsolo ucounts = 3[61, 226, 269]
ids = [8, 1, 3]

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

UMI info for barcode CTCCTAGTCACCGGGT-1 contig 1 = ACCCAAAAAC...
umi AACGCCCGCC = 224 reads: +436 validated

UMI info for barcode CTCCTAGTCACCGGGT-1 contig 2 = GGTGGTAGCT...
umi ACAATAAGTG = 267 reads: +388 validated
umi GAGAATACAG = 61 reads: -343 +1 -2X +1 -3X +1 -2XX +3 -1XX +31 invalidated

GOOD CONTIGS

TIG 1[bases=524]
0-54 ==> 5-59 on |64|IGHV1-18|5'UTR| [len=59] (mis=1)
54-407 ==> 0-353 on |65|IGHV1-18|L-REGION+V-REGION| [len=353] (mis=22)
456-490 ==> 12-46 on |54|IGHJ4|J-REGION| [len=46] (mis=0)
490-524 ==> 0-34 on |1|IGHA1|C-REGION| [len=1058] (mis=0)
junction support: 1 umis using 18 reads
cdr3 = CARDKHFRDPYYHYSGALDHW at 396, score = 7 + 7
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 222
start codons at 54, 252, 257, 274, 318, 351
confident = false

TIG 2[bases=638]
0-39 ==> 47-86 on |732|IGLV6-57|5'UTR| [len=86] (mis=0)
39-376 ==> 0-337 on |384|IGLV6-57|L-REGION+V-REGION| [len=353] (mis=6)
389-427 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=1)
427-638 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 1 umis using 45 reads
cdr3 = CQSFGSNTRVF at 366, score = 6 + 8
umis assigned: [3, 8]
of which 2 are surviving nonsolos
reads assigned: 327
start codons at 39, 102, 193, 244
confident = false
NOT paired!

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

BARCODE 47.157 = CTCCTAGTCAGAGCTT-1

using 249 reads

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

graph has 82 edges initially, 4 edges after simplification

total ucounts = 4
nonsolo ucounts = 3[2, 20, 226]
surviving nonsolo ucounts = 1[226]
ids = [3]

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

UMI info for barcode CTCCTAGTCAGAGCTT-1 contig 1 = TGGGGAGACC...
umi TGGATTACTC = 202 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=439]
25-376 ==> 0-351 on |235|IGKV1-6|L-REGION+V-REGION| [len=351] (mis=2)
376-413 ==> 0-37 on |216|IGKJ4|J-REGION| [len=37] (mis=0)
413-439 ==> 0-26 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 34 reads
cdr3 = CLQDYNYPLTF at 352, score = 9 + 9
umis assigned: [3]
of which 1 are surviving nonsolos
reads assigned: 201
start codons at 25, 31, 87, 100, 182, 236
confident = false
NOT paired!

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

BARCODE 47.161 = CTCCTAGTCATAACCG-1

using 360 reads

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

graph has 134 edges initially, 4 edges after simplification

total ucounts = 9
nonsolo ucounts = 5[2, 3, 5, 82, 264]
surviving nonsolo ucounts = 2[82, 264]
ids = [1, 0]

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

UMI info for barcode CTCCTAGTCATAACCG-1 contig 1 = GGGGGAAGCT...
umi ATCTTGATAA = 75 reads: +388 validated

UMI info for barcode CTCCTAGTCATAACCG-1 contig 2 = GGGACTGATC...
umi AGCGCCTTTC = 256 reads: +400 validated

GOOD CONTIGS

TIG 1[bases=459]
0-58 ==> 56-114 on |322|IGLV1-44|5'UTR| [len=114] (mis=0)
58-411 ==> 0-353 on |323|IGLV1-44|L-REGION+V-REGION| [len=353] (mis=15)
408-446 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=3)
junction support: 1 umis using 10 reads
cdr3 = CASWDDSLRGRVF at 379, score = 8 + 8
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 75
start codons at 58, 212, 362, 387, 392
confident = false

TIG 2[bases=520]
0-36 ==> 0-36 on |272|IGKV2D-28|5'UTR| [len=36] (mis=2)
36-396 ==> 0-360 on |273|IGKV2D-28|L-REGION+V-REGION| [len=360] (mis=1)
398-436 ==> 0-38 on |215|IGKJ3|J-REGION| [len=38] (mis=0)
436-520 ==> 0-84 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 29 reads
cdr3 = CMQALQTPLFTF at 372, score = 9 + 8
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 253
start codons at 36, 69, 105, 193, 355, 375, 478
confident = false
NOT paired!

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

BARCODE 47.174 = CTCCTAGTCCCGACTT-1

using 663 reads

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

graph has 334 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 6[3, 4^2, 5, 18, 625]
surviving nonsolo ucounts = 2[18, 625]
ids = [2, 4]

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

UMI info for barcode CTCCTAGTCCCGACTT-1 contig 1 = AGGTCTCAGA...
umi CTCTGCAGTC = 20 reads: +75 -2 +127 -1X +57 -10 +40 -1 +2 -1 +12 -3 +56 -19 invalidated
umi GATACGTCCT = 629 reads: +406 validated

GOOD CONTIGS

TIG 1[bases=556]
0-79 ==> 0-79 on |158|IGHV3-7|5'UTR| [len=79] (mis=0)
79-432 ==> 0-353 on |159|IGHV3-7|L-REGION+V-REGION| [len=353] (mis=15)
437-485 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=5)
485-556 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 1 umis using 40 reads
cdr3 = CARRSREVDYW at 421, score = 9 + 7
umis assigned: [2, 4]
of which 2 are surviving nonsolos
reads assigned: 636
start codons at 79, 235, 296, 314, 382
confident = false
NOT paired!

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

BARCODE 47.180 = CTCCTAGTCCGCATAA-1

using 2505 reads

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

graph has 2316 edges initially, 32 edges after simplification

total ucounts = 576
nonsolo ucounts = 217[2^82, 3^39, 4^28, 5^18, 6^13, 7^9, 8^7, 9^2, 10^7, 11^2, 12^2, 14, 17^2, 198, 230, 244, 285, 326]
surviving nonsolo ucounts = 5[8, 198, 230, 244, 326]
ids = [328, 198, 157, 467, 191]

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

UMI info for barcode CTCCTAGTCCGCATAA-1 contig 1 = GGGGGCACCA...
umi CATCTAACGG = 233 reads: +394 validated
umi CTAAAATACG = 15 reads: -386 +7 -1XX invalidated
umi TCTTACCCTC = 242 reads: +394 validated

UMI info for barcode CTCCTAGTCCGCATAA-1 contig 2 = ATCACATAAC...
umi CCTCAGCGTG = 313 reads: +445 validated

GOOD CONTIGS

TIG 1[bases=639]
0-34 ==> 0-34 on |387|IGLV7-46|5'UTR| [len=34] (mis=3)
34-385 ==> 0-351 on |388|IGLV7-46|L-REGION+V-REGION| [len=351] (mis=2)
390-428 ==> 0-38 on |311|IGLJ2|J-REGION| [len=38] (mis=0)
428-639 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 2 umis using 87 reads
cdr3 = CLLSYSGARQGVVF at 358, score = 8 + 8
umis assigned: [157, 242, 467]
of which 2 are surviving nonsolos
reads assigned: 481
start codons at 34, 242, 341
confident = true

TIG 2[bases=549]
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=2)
414-445 ==> 0-31 on |14|IGHD2-2|D-REGION| [len=31] (mis=8)
447-503 ==> 7-63 on |737|IGHJ6|J-REGION| [len=63] (mis=0)
503-549 ==> 0-46 on |6|IGHD|C-REGION| [len=1289] (mis=0)
junction support: 1 umis using 29 reads
cdr3 = CASGSPHCSSTSCLTPYYYGMDVW at 400, score = 9 + 7
umis assigned: [191]
of which 1 are surviving nonsolos
reads assigned: 307
start codons at 58, 209, 256, 355, 460, 521
confident = true
now this is a cell
paired!

GCGAGTGGATCCCCTCATTGTAGTAGTACCAGCTGCTTGACCCCCTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG <==> GCGCAGCCTGAGGATGAGGCTGAGTATTACTGCTTGCTCTCCTATAGTGGTGCTCGGCAGGGTGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG

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

BARCODE 47.189 = CTCCTAGTCCTTCAAT-1

using 251 reads

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

graph has 118 edges initially, 2 edges after simplification

total ucounts = 9
nonsolo ucounts = 3[2^2, 241]
surviving nonsolo ucounts = 1[241]
ids = [7]

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

UMI info for barcode CTCCTAGTCCTTCAAT-1 contig 1 = GGGAGGAACT...
umi TAATGCCATA = 228 reads: +373 validated

GOOD CONTIGS

TIG 1[bases=497]
0-35 ==> 12-47 on |278|IGKV3-11|5'UTR| [len=47] (mis=0)
35-364 ==> 0-329 on |279|IGKV3-11|L-REGION+V-REGION| [len=345] (mis=9)
370-408 ==> 0-38 on |217|IGKJ5|J-REGION| [len=38] (mis=4)
408-497 ==> 0-89 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 40 reads
cdr3 = CQQRGNTF at 356, score = 9 + 8
umis assigned: [7]
of which 1 are surviving nonsolos
reads assigned: 223
start codons at 35, 240, 450
confident = false
NOT paired!

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

BARCODE 47.197 = CTCCTAGTCGTAGATC-1

using 244 reads

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

graph has 114 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 4[2, 4^2, 232]
surviving nonsolo ucounts = 1[232]
ids = [1]

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

UMI info for barcode CTCCTAGTCGTAGATC-1 contig 1 = TGAGCGCAGA...
umi GAATCTAACA = 214 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=464]
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=23)
386-424 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=4)
424-464 ==> 0-40 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 1 umis using 37 reads
cdr3 = CGTWDNSLSAWVF at 357, score = 7 + 8
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 210
start codons at 36, 241, 365
confident = false
NOT paired!

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

BARCODE 47.200 = CTCCTAGTCGTTTAGG-1

using 180 reads

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

graph has 48 edges initially, 2 edges after simplification

total ucounts = 7
nonsolo ucounts = 5[2^2, 3, 4, 167]
surviving nonsolo ucounts = 1[167]
ids = [2]

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

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

BARCODE 47.219 = CTCGAAAAGAATGTTG-1

using 661 reads

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

graph has 304 edges initially, 4 edges after simplification

total ucounts = 7
nonsolo ucounts = 4[2^2, 240, 414]
surviving nonsolo ucounts = 2[240, 414]
ids = [1, 3]

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

UMI info for barcode CTCGAAAAGAATGTTG-1 contig 1 = GGAGGAACTG...
umi CAAATCAACA = 414 reads: +385 validated

GOOD CONTIGS

TIG 1[bases=555]
0-34 ==> 13-47 on |278|IGKV3-11|5'UTR| [len=47] (mis=0)
34-379 ==> 0-345 on |279|IGKV3-11|L-REGION+V-REGION| [len=345] (mis=0)
381-419 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=0)
419-555 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 60 reads
cdr3 = CQQRSNWPPWTF at 355, score = 9 + 8
umis assigned: [3]
of which 1 are surviving nonsolos
reads assigned: 406
start codons at 34, 239, 242, 461
confident = false

REJECT CONTIGS

TIG 1[bases=506]
0-75 ==> 4-79 on |141|IGHV3-48|5'UTR| [len=79] (mis=0)
0-75 ==> 5925-6000 on rc of segment after IGHV3-48 exon 1 [len=6000] (mis=0)
35-86 ==> 3150-3201 on rc of segment before IGHV3-33 exon 2 [len=3201] (mis=9)
43-114 ==> 6506-6577 on segment before IGHV3OR16-9 exon 1 [len=6692] (mis=4)
75-317 ==> 0-242 on |142|IGHV3-48|L-REGION+V-REGION| [len=353] (mis=30)
317-426 ==> 244-353 on |142|IGHV3-48|L-REGION+V-REGION| [len=353] (mis=8) [SHIFT!]
457-503 ==> 0-46 on |54|IGHJ4|J-REGION| [len=46] (mis=5)
cdr3 = CARESYVGLYSSTSYPDYW at 415, score = 8 + 7
umis assigned: [1]
of which 1 are surviving nonsolos
reads assigned: 232
start codons at 75, 224, 231, 310, 350, 376, 431
confident = false
>vscore_47.219_70.5%
ATGGAGTTGGGGCTGTGCTGGGTTTTCCTTGTCGCTATTTTAGAAGGTGTCCAGTGTGAGGTGCGCCTGGTGGAGTCTGGGGGAGGCTTGATACAACCAGGGGGGTCCCTGAGACTCTCCTGTGAAGGCTCTGGATTCTCCTTCAATAGATGGAACATGAACTGGGTCCGCCAGGCTCCAGGGAAGGGACTGGAGTGGGTTGCATTAGTAACTAGTACTAGTAGTTACATAAATTATGCAGATTGTGAGGGGCCGATTCACCATCGCCAGAGACAATGCCAAGAACTCAGTGTTTCTGCAAATGAACAGCCTGAGAGACGAGGACACGGCTGTGTATTACTGTGCGAGAGAAT
frameshifted full length transcript of length 506
VJ delta = 8
not full
not full
NOT paired!

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

BARCODE 47.220 = CTCGAAAAGACAATAC-1

using 9413 reads

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

graph has 4390 edges initially, 34 edges after simplification

total ucounts = 538
nonsolo ucounts = 307[2^99, 3^68, 4^41, 5^22, 6^16, 7^7, 8^7, 9^3, 10, 11^2, 12^2, 13^2, 14^2, 32, 45, 80, 81^2, 87, 93, 127, 128, 140, 172, 175, 177, 196, 225, 238, 239, 242, 260^2, 265, 276, 280, 313, 316, 318, 319, 333, 336, 361, 369, 374, 396, 412, 422]
surviving nonsolo ucounts = 34[8, 80, 81^2, 87, 93, 127, 128, 140, 172, 175, 177, 196, 225, 238, 239, 242, 260^2, 265, 276, 280, 313, 316, 318, 319, 333, 336, 361, 369, 374, 396, 412, 422]
ids = [48, 300, 56, 358, 200, 154, 172, 177, 452, 103, ...]

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

UMI info for barcode CTCGAAAAGACAATAC-1 contig 1 = AGTGCTTTCT...
umi AATAGGTGTG = 277 reads: +454 validated
umi ACCGAATCTT = 74 reads: +443 -11 non-validated
umi ACCGTATCAG = 320 reads: -2X +452 invalidated
umi ACTCCTATCT = 291 reads: +454 validated
umi AGGCGCCGGG = 245 reads: +454 validated
umi AGTCCGGCGT = 175 reads: +454 validated
umi CAAATCTTGG = 83 reads: +2 -1 +450 -1 non-validated
umi CACAGGCCTC = 312 reads: +454 validated
umi CAGCGGCTGT = 131 reads: +454 validated
umi CAGGGGACAG = 240 reads: +454 validated
umi CAGTAATTGT = 131 reads: +454 validated
umi CTATTGCTTT = 428 reads: +454 validated
umi GCATAAAGCT = 365 reads: +454 validated
umi GCGGATGCTC = 304 reads: +454 validated
umi GTAACGCTCC = 290 reads: +454 validated
umi GTTAGGCTTT = 82 reads: +399 -55 non-validated
umi TACACAGCTC = 169 reads: +454 validated
umi TCATTCCTCC = 199 reads: +454 validated
umi TCCCGGCGCC = 373 reads: +454 validated
umi TCCTTCTAAC = 269 reads: +454 validated
umi TCTCCGTCAG = 138 reads: +439 -15 non-validated
umi TGAGACCGTC = 244 reads: +454 validated
umi TTATTACACA = 175 reads: +424 -30 non-validated
umi TTGCCATCAA = 315 reads: +452 -2 non-validated

UMI info for barcode CTCGAAAAGACAATAC-1 contig 2 = GGGAGAGCTC...
umi ACACCGACTG = 8 reads: +7 -1 +47 -24 +229 -89 non-validated
umi CACATACCAC = 263 reads: +397 validated
umi GGTATTTACA = 284 reads: +397 validated

GOOD CONTIGS

TIG 1[bases=542]
17-388 ==> 0-371 on |186|IGHV4-34|L-REGION+V-REGION| [len=371] (mis=1)
397-428 ==> 0-31 on |13|IGHD2-15|D-REGION| [len=31] (mis=7)
421-471 ==> 0-50 on |53|IGHJ3|J-REGION| [len=50] (mis=5)
471-542 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
junction support: 18 umis using 358 reads
cdr3 = CARVARIPDCSGGSCYPIDIW at 377, score = 9 + 8
umis assigned: [26, 56, 59, 78, 97, 103, 154, 162, 172, 176] and 14 others
of which 24 are surviving nonsolos
reads assigned: 5530
start codons at 17, 38, 82, 168, 452
confident = true

TIG 2[bases=633]
25-387 ==> 0-362 on |372|IGLV4-60|L-REGION+V-REGION| [len=362] (mis=1)
384-422 ==> 0-38 on |313|IGLJ3|J-REGION| [len=38] (mis=1)
422-633 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 2 umis using 104 reads
cdr3 = CETWDSNTRVF at 361, score = 7 + 8
umis assigned: [48, 163, 341]
of which 3 are surviving nonsolos
reads assigned: 544
start codons at 25, 189, 229, 344
confident = true

REJECT CONTIGS

TIG 1[bases=550]
3-84 ==> 5665-5746 on segment before IGKV1OR2-6 exon 1 [len=5879] (mis=3)
27-380 ==> 0-353 on |253|IGKV1D-39|L-REGION+V-REGION| [len=353] (mis=3)
376-414 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=3)
414-550 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
umis assigned: [93, 122, 303, 407]
of which 4 are surviving nonsolos
reads assigned: 1352
start codons at 27, 33, 89, 102, 238, 456
confident = false
did not find CDR3
now this is a cell
paired!

TATTACTGTGCGAGAGTCGCGCGGATTCCGGATTGTAGTGGTGGTAGCTGCTACCCTATTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG <==> ATCTCCAACCTCCAGTTTGAGGATGAGGCTGATTATTACTGTGAGACCTGGGACAGTAACACTCGGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG

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

BARCODE 47.228 = CTCGAAAAGAGCTATA-1

using 348 reads

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

graph has 108 edges initially, 2 edges after simplification

total ucounts = 3
nonsolo ucounts = 2[2, 345]
surviving nonsolo ucounts = 1[345]
ids = [2]

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

REJECT CONTIGS

TIG 1[bases=547]
1-298 ==> 59-356 on |321|IGLV1-40|L-REGION+V-REGION| [len=356] (mis=12)
298-336 ==> 0-38 on |309|IGLJ1|J-REGION| [len=38] (mis=1)
336-547 ==> 0-211 on |305|IGLC1|C-REGION| [len=317] (mis=0)
cdr3 = CQSYDSSLSGLYVF at 266, score = 7 + 8
umis assigned: [2]
of which 1 are surviving nonsolos
reads assigned: 339
start codons at 96, 99, 150, 249, 276, 300, 468
confident = false
not full
VJ delta = 22
not full
NOT paired!

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BARCODE 47.232 = CTCGAAAAGATGCGAC-1

using 217 reads

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

graph has 76 edges initially, 2 edges after simplification

total ucounts = 6
nonsolo ucounts = 2[2, 211]
surviving nonsolo ucounts = 1[211]
ids = [5]

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

UMI info for barcode CTCGAAAAGATGCGAC-1 contig 1 = GAATCAGTCC...
umi GTGTTCCACG = 183 reads: +388 validated

GOOD CONTIGS

TIG 1[bases=439]
0-25 ==> 2-27 on |222|IGKV1-17|5'UTR| [len=27] (mis=0)
25-376 ==> 0-351 on |223|IGKV1-17|L-REGION+V-REGION| [len=351] (mis=19)
375-413 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=1)
413-439 ==> 0-26 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 38 reads
cdr3 = CLQYSSSPWTF at 352, score = 9 + 8
umis assigned: [5]
of which 1 are surviving nonsolos
reads assigned: 180
start codons at 25, 31, 100, 236
confident = false
NOT paired!

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

BARCODE 47.234 = CTCGAAAAGCACCGTC-1

using 193 reads

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

graph has 82 edges initially, 4 edges after simplification

total ucounts = 8
nonsolo ucounts = 6[2^2, 3, 4, 86, 94]
surviving nonsolo ucounts = 3[3, 86, 94]
ids = [2, 6, 0]

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

UMI info for barcode CTCGAAAAGCACCGTC-1 contig 1 = CGGAACCATG...
umi ACAGGCTCTG = 84 reads: +382 validated

GOOD CONTIGS

TIG 1[bases=484]
7-352 ==> 0-345 on |281|IGKV3-15|L-REGION+V-REGION| [len=345] (mis=17)
351-389 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=3)
389-484 ==> 0-95 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 1 umis using 18 reads
cdr3 = CLQYSDWPRTF at 328, score = 9 + 8
umis assigned: [0]
of which 1 are surviving nonsolos
reads assigned: 82
start codons at 7, 76, 212, 431
confident = false
NOT paired!

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BARCODE 47.235 = CTCGAAAAGCCACCTG-1

using 702 reads

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

graph has 408 edges initially, 6 edges after simplification

total ucounts = 48
nonsolo ucounts = 38[2^6, 3^2, 4^3, 5^10, 6, 7^6, 8^2, 9^2, 11, 12, 13, 14, 20, 460]
surviving nonsolo ucounts = 1[460]
ids = [23]

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

REJECT CONTIGS

TIG 1[bases=529]
18-376 ==> 0-358 on |98|IGHV2-5|L-REGION+V-REGION| [len=358] (mis=1)
384-403 ==> 8-27 on |22|IGHD3-9|D-REGION| [len=27] (mis=0)
410-458 ==> 0-48 on |55|IGHJ4|J-REGION| [len=48] (mis=0)
458-529 ==> 0-71 on |60|IGHM|C-REGION| [len=1358] (mis=0)
umis assigned: [23]
of which 1 are surviving nonsolos
reads assigned: 453
start codons at 18, 62, 241, 244, 324, 333
confident = false
frameshifted full length stopped transcript of length 529
did not find CDR3
NOT paired!

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BARCODE 47.240 = CTCGAAAAGGAATTAC-1

using 368 reads

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

graph has 154 edges initially, 2 edges after simplification

total ucounts = 10
nonsolo ucounts = 6[2, 3^2, 13, 16, 327]
surviving nonsolo ucounts = 1[327]
ids = [6]

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

UMI info for barcode CTCGAAAAGGAATTAC-1 contig 1 = AGCTGTGGGC...
umi CTTCGTAGCT = 324 reads: +361 validated

GOOD CONTIGS

TIG 1[bases=612]
0-40 ==> 0-40 on |356|IGLV3-19|5'UTR| [len=40] (mis=0)
40-293 ==> 0-253 on |357|IGLV3-19|L-REGION+V-REGION| [len=337] (mis=0)
293-356 ==> 274-337 on |357|IGLV3-19|L-REGION+V-REGION| [len=337] (mis=0)
363-401 ==> 0-38 on |311|IGLJ2|J-REGION| [len=38] (mis=2)
401-612 ==> 0-211 on |306|IGLC2|C-REGION| [len=317] (mis=0)
junction support: 1 umis using 65 reads
cdr3 = CNSRDSSGNHLVF at 334, score = 8 + 9
umis assigned: [6]
of which 1 are surviving nonsolos
reads assigned: 321
start codons at 40, 159, 188, 239, 317
confident = false
see deletion of 21 bases at pos 253 on |357|IGLV3-19|L-REGION+V-REGION|
NOT paired!

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BARCODE 47.245 = CTCGAAAAGGGTGTGT-1

using 721 reads

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

graph has 264 edges initially, 8 edges after simplification

total ucounts = 10
nonsolo ucounts = 3[6, 51, 657]
surviving nonsolo ucounts = 2[51, 657]
ids = [3, 9]

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

REJECT CONTIGS

TIG 1[bases=450]
10-201 ==> 165-356 on |321|IGLV1-40|L-REGION+V-REGION| [len=356] (mis=6)
201-239 ==> 0-38 on |309|IGLJ1|J-REGION| [len=38] (mis=1)
239-450 ==> 0-211 on |305|IGLC1|C-REGION| [len=317] (mis=0)
cdr3 = CQSYDSSLSGLYVF at 169, score = 7 + 8
umis assigned: [9]
of which 1 are surviving nonsolos
reads assigned: 653
start codons at 2, 53, 152, 179, 203, 371
confident = false
not full
VJ delta = 22
not full
NOT paired!

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

BARCODE 47.247 = CTCGAAAAGGGTTCCC-1

using 8301 reads

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

graph has 7797 edges initially, 153 edges after simplification

total ucounts = 1442
nonsolo ucounts = 1117[2^168, 3^128, 4^118, 5^100, 6^80, 7^78, 8^84, 9^71, 10^61, 11^51, 12^41, 13^32, 14^22, 15^22, 16^14, 17^12, 18^9, 19^8, 20^5, 22^3, 23^2, 24, 26, 28, 29^2, 33, 49, 58]
surviving nonsolo ucounts = 0[]
ids = []

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

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

BARCODE 47.253 = CTCGAAAAGTCGTTTG-1

using 13629 reads

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

graph has 4988 edges initially, 62 edges after simplification

total ucounts = 768
nonsolo ucounts = 328[2^102, 3^64, 4^34, 5^37, 6^14, 7^10, 8^7, 9^4, 10^3, 11, 12^3, 13, 14^2, 17, 18, 19, 20, 21, 28, 37, 53, 62, 69, 90, 121, 173, 180, 185, 226, 239, 248, 257, 268, 277, 283, 286, 294, 305, 315, 319, 322, 323^2, 325, 328, 332, 340, 341, 352, 353, 360, 381, 400^2, 404, 413, 434, 765, 802]
surviving nonsolo ucounts = 37[28, 62, 90, 121, 173, 180, 226, 239, 248, 257, 268, 277, 283, 286, 294, 305, 315, 319, 322, 323^2, 325, 328, 332, 340, 341, 352, 353, 360, 381, 400^2, 404, 413, 434, 765, 802]
ids = [266, 693, 761, 39, 423, 411, 438, 567, 34, 297, ...]

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

UMI info for barcode CTCGAAAAGTCGTTTG-1 contig 1 = ATACTTTCTG...
umi AATGGTCGAC = 103 reads: -400X +1 -3XX +1 -1XX +2 -1XX +3 -10XX +1 -2XX +1 -6XX +1 invalidated
umi GAGCAGGTGC = 186 reads: +433 validated
umi TAGACGGGCC = 239 reads: +433 validated
umi TGTGGCGCTT = 63 reads: +433 validated

UMI info for barcode CTCGAAAAGTCGTTTG-1 contig 2 = GGGAGAGCTC...
umi AACATGGTAG = 313 reads: -303 +82 non-validated
umi AAGCGGGGCT = 294 reads: +385 validated
umi AAGTATCCGT = 252 reads: +385 validated
umi ACTATAAGTG = 328 reads: +385 validated
umi ACTATTATTT = 383 reads: -355X +2 -8XX +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi AGGTCCTAGT = 398 reads: +385 validated
umi ATCACTCGGA = 403 reads: +385 validated
umi ATTCTTATGC = 399 reads: -365X +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi CAAAGTCTTT = 355 reads: +385 validated
umi CAATACCTAC = 288 reads: +385 validated
umi CATGTGTCGC = 323 reads: -355X +2 -8XX +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi CCAAGCTGTA = 273 reads: +385 validated
umi CCGCTATGGG = 322 reads: -353X +1 -1X +2 -8XX +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi CCGTCTTTCG = 256 reads: +385 validated
umi CGGGCACTAG = 319 reads: +385 validated
umi GATGCATCAT = 172 reads: +385 validated
umi GCCTGATCGC = 224 reads: +385 validated
umi GGATTTGCCG = 384 reads: +385 validated
umi GGCCGGAGAG = 348 reads: +385 validated
umi GGTCACCCGG = 301 reads: +385 validated
umi GGTTGGCACA = 258 reads: -353X +1 -1XX +2 -8XX +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi GTCTCAGATG = 306 reads: -353X +1 -1X +2 -8XX +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi GTGCGCTCGG = 328 reads: +385 validated
umi GTTAGTGGGC = 314 reads: +385 validated
umi TAAATACCCG = 753 reads: -353X +1 -1XX +2 -8XX +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi TATAAGTCGG = 285 reads: +385 validated
umi TCACATGGGC = 415 reads: -353X +1 -1XX +2 -8XX +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi TGGGCCTTCA = 334 reads: +385 validated
umi TTCATGCCTT = 334 reads: -353X +1 -1XX +2 -8XX +1 -3XX +1 -1XX +1 -1XX +1 -5XX +2 -4XX invalidated
umi TTTATGAGGC = 326 reads: +385 validated
umi TTTTCGTTAC = 90 reads: +385 validated

GOOD CONTIGS

TIG 1[bases=652]
0-37 ==> 64-101 on |195|IGHV4-61|5'UTR| [len=101] (mis=0)
37-393 ==> 0-356 on |196|IGHV4-61|L-REGION+V-REGION| [len=356] (mis=30)
420-470 ==> 0-50 on |53|IGHJ3|J-REGION| [len=50] (mis=5)
470-652 ==> 0-182 on |40|IGHG1|C-REGION| [len=884] (mis=1)
junction support: 3 umis using 47 reads
cdr3 = CARVIKVDIVVVPGVFDVW at 382, score = 9 + 7
umis assigned: [39, 411, 567, 693]
of which 4 are surviving nonsolos
reads assigned: 580
start codons at 37, 81, 256, 431, 451
confident = true

TIG 2[bases=568]
47-392 ==> 0-345 on |281|IGKV3-15|L-REGION+V-REGION| [len=345] (mis=9)
394-432 ==> 0-38 on |213|IGKJ1|J-REGION| [len=38] (mis=2)
432-568 ==> 0-136 on |212|IGKC|C-REGION| [len=320] (mis=0)
junction support: 21 umis using 1020 reads
cdr3 = CQQYTNWPPWTF at 368, score = 9 + 8
umis assigned: [13, 28, 34, 81, 82, 112, 149, 190, 204, 212] and 21 others
of which 31 are surviving nonsolos
reads assigned: 9932
start codons at 47, 116, 252, 255, 474
confident = true
now this is a cell
paired!

GCCGTGTATTACTGTGCGAGAGTGATCAAGGTCGATATTGTAGTCGTACCGGGTGTTTTTGATGTCTGGGGCCACGGGACAATGGTCACCGTCTCTTCAG <==> AGCAGCCTGCAGTCTGAAGATTTTGCACTCTATTACTGTCAGCAATATACTAACTGGCCTCCTTGGACGTTCGGCCAAGGGACCAAGGTGGAAGTCAAAC
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_B_GEM_WELL_PROCESSOR/SC_VDJ_CONTIG_ASSEMBLER/ASSEMBLE_VDJ/fork0/chnk047-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/chnk047-ucc6a7a72ce/files/contig_bam.bam

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16.647 seconds used processing barcodes, peak mem = 0.23
