Mercurial > repos > chmaramis > irprofiler
diff test-data/clono_compute_def1_TCR_input1.csv @ 1:acaa8e8a0b88 draft default tip
Uploaded test-data & added tool help
| author | chmaramis |
|---|---|
| date | Mon, 30 Apr 2018 04:47:52 -0400 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/clono_compute_def1_TCR_input1.csv Mon Apr 30 04:47:52 2018 -0400 @@ -0,0 +1,21 @@ + Sequence ID Functionality V-GENE V-REGION score V-REGION identity % V-REGION identity nt V-REGION identity % (with ins/del events) V-REGION identity nt (with ins/del events) J-GENE J-REGION score J-REGION identity % J-REGION identity nt D-GENE D-REGION reading frame CDR1-IMGT length CDR2-IMGT length CDR3-IMGT length CDR-IMGT lengths FR-IMGT lengths AA JUNCTION JUNCTION frame Orientation Functionality comment V-REGION potential ins/del J-GENE and allele comment V-REGION insertions V-REGION deletions Sequence +1 @SRR060727.12120 SOLEXA7:7:2:351:1247 length=202 productive TRBV28 145 100 30/30 nt TRBJ2-7 235 100 47/47 nt TRBD1 3 X X 12 X.X.12 [X.X.10.10] CAAGGQGNSYEQYF in-frame + agcaccaaccagacatctatgtacctctgtgccgctggggggcagggaaactcctacgagcagtacttcgggccgggcaccaggctcacggtcacagaggataacgggtgggaacacgtttttcaggtcctctgtgaccgtgagcctggtgcccggcccgaagtactgctcgtaggagtttccctgccccccagcggcacag +2 @SRR060727.14069 SOLEXA7:7:2:622:201 length=202 productive TRBV30 95 100 20/20 nt TRBJ1-1 195 89.58 43/48 nt TRBD2 3 X X 10 X.X.10 [X.X.6.10] CAAEGILAEAFF in-frame + actctggcttctatctctgtgccgccgagggtattttggctgaagctttctttggacaaggcaccagactcacagttgtagaggacctgaacaaggtgttctaacgggtgggnacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttcagccaaaataccctcggcggcacagagatag +3 @SRR060727.45221 SOLEXA7:7:5:1541:638 length=202 productive TRBV30 145 100 30/30 nt TRBJ1-1 195 89.58 43/48 nt TRBD2 3 X X 10 X.X.10 [X.X.10.10] CAAEGILAEAFF in-frame + cttctcagtgactctggcttctatctctgtgccgccgagggtattttggctgaagctttctttggacaaggcaccagactcacagttgtagaggacctgaataacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttcagccaaaataccctcggcggcacagagatag +4 @SRR060727.49324 SOLEXA7:7:6:384:121 length=202 productive TRBV10-3 165 100 34/34 nt TRBJ1-1 240 100 48/48 nt TRBD1 2 X X 11 X.X.11 [X.X.11.10] CAACEGLNTEAFF in-frame + cgctaccagctcccagacatctgtgtacttctgtgccgcatgtgaggggctgaacactgaagctttctttggacaaggcaccagactcacagttgtagaggtaacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttcagtgttcagcccctcacatgcggcacagaag +5 @SRR060727.85642 SOLEXA7:7:10:98:1840 length=202 productive TRBV30 115 100 24/24 nt TRBJ1-1 195 89.58 43/48 nt TRBD2 3 X X 10 X.X.10 [X.X.8.10] CAAEGILAEAFF in-frame + agtgactctggcttctatctctgtgccgccgagggtattttggctgaagctttctttggacaaggcaccagactcacagttgtagcggacctgaacaagggtaacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttcagccaaaataccctcggcggcacagagatag +6 @SRR060727.100243 SOLEXA7:7:11:766:821 length=202 productive TRBV15 105 100 22/22 nt TRBJ1-1 222 95.83 46/48 nt TRBD1 1 X X 11 X.X.11 [X.X.7.10] CAAGGKRYTEAFF in-frame - ggacgcagccatgtacctgtgtgccgcaggggggaaacggtacactgaagctttctttggacaaggcaccagactcacagttgtagaggacctggacaaggtacaactgtgagtctggtgccttgtccaaagaaagcttcagtgtaccgtttcccccctgcggcacacaggtacatggctgcgtcccccaggcctggtgagc +7 @SRR060727.114177 SOLEXA7:7:12:1063:980 length=202 productive TRBV19 150 100 31/31 nt TRBJ1-5 241 98 49/50 nt TRBD1 2 X X 13 X.X.13 [X.X.10.10] CAAGEGEVRNQPQHF in-frame + ccaaaagaacccgacagctttctatctctgtgctgcgggtgagggggaggttagaaatcagccccagcattttggtgatgggactcgactctccatcctagtaacgggtgggaacaccttgttcaggtcctctaggatggagagtcgagtcccatcaccaaaatgctggggctgatttctaacctccccctcacccgcagca +8 @SRR060727.130541 SOLEXA7:7:14:145:1124 length=202 productive TRBV3-1 160 100 33/33 nt TRBJ1-5 232 96 48/50 nt TRBD1 2 X X 12 X.X.12 [X.X.11.10] CAAGQGFGNQPQHF in-frame + ctggagcttggtgactctgctgtgtatttctgtgccgcaggtcagggttttgggaatcagccccagcattttggtgatgggactcgactctccatcctagataacgggtgggaacaccttgttcaggtcctctaggatggagagtcgagtcccatcaccaaaatgctggggctgattcccaaaaccctgacctgcggcacag +9 @SRR060727.175366 SOLEXA7:7:18:291:1226 length=202 productive TRBV10-3 or TRBV6-1 or TRBV6-4 or TRBV6-5 or TRBV6-6 95 100 20/20 nt TRBJ1-1 231 97.92 47/48 nt TRBD1 1 X X 13 X.X.13 [X.X.6.10] CAAGPRAGTNTEAFF in-frame + agacatctgtgtacttctgtgccgctggaccaagggcagggacgaacactgaagctttctttggacaaggcaccagactcacagttgtagaggacctgaactaacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttcagtgttcgtccctgcccttggtccagcggca +10 @SRR060727.184926 SOLEXA7:7:19:439:598 length=202 productive TRBV6-1 or TRBV6-5 or TRBV6-6 140 100 29/29 nt TRBJ1-1 231 97.92 47/48 nt TRBD1 2 X X 12 X.X.12 [X.X.9.10] CAADAQGGNTEAFF in-frame + ctccctcccagacatctgtgtacttctgtgccgcggacgcacagggggggaacactgaagctttctttggacaaggcaccagactcacagttgtagaggactaacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttcagtgttccccccctgtgcgtccgcggcacag +11 @SRR060727.187683 SOLEXA7:7:19:809:1493 length=202 productive TRBV19 135 100 28/28 nt TRBJ1-5 232 96 48/50 nt TRBD1 2 X X 13 X.X.13 [X.X.9.10] CAAGEGEVRNQPQHF in-frame + aaagaacccgacagctttctatctctgtgctgcgggtgagggggaggttagaaatcagccccagcattttggagatgggactcgactctccatcctagaggtaacgggtgggaacaccttgttcaggtcctctaggatggagagtcgagtcccatctccaaaatgctggggctgatttctaacctccccctcacccgcagca +12 @SRR060727.190355 SOLEXA7:7:19:1314:185 length=202 productive TRBV27 130 100 27/27 nt TRBJ1-5 223 94 47/50 nt TRBD1 3 X X 9 X.X.9 [X.X.9.10] CAAGPNQPQHF in-frame + cccaaccagacctctctgtacttctgtgccgccgggcccaatcagccccagcattttggtgatgggactcgactctccatcctagaggacctgaacaaggttaacgggtgggaacaccttgttcaggtcctctaggatggagagtcgagtcccatcaccaaaatgctggggctgattgggcccggcggcacagaagtacaga +13 @SRR060727.196094 SOLEXA7:7:20:579:567 length=202 productive TRBV12-3 or TRBV12-4 120 100 25/25 nt TRBJ2-5 195 89.58 43/48 nt TRBD1 1 X X 9 X.X.9 [X.X.8.10] CAAGTIETQYF in-frame + cagggactcagctgtgtacttctgtgccgcggggacaattgagacccagtacttcgggccaggcacgcggctcctggtgctcgaggacatgaaaaaagtgttaacgggtgggaacacgtttttcaggtcctcgagcaccaggagccgcgtgcctggcccgaagtactgggtctcaattgtccccgcggcacagaagtacaca +14 @SRR060727.208531_SOLEXA7:7:21:1082:1793_length=20 productive TRBV25-1 120 100 25/25 nt TRBJ1-1 195 89.58 43/48 nt TRBD2 2 X X 10 X.X.10 [X.X.8.10] CAAGGGAPEAFF in-frame + ctcacatacctctcagtacctctgtgcagcgggtggaggggccccagaagctttctttggacaaggcaccagactcacagttgtagaggacctgaacaaggtaacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttctggggcccctccacccgctgcacagagggaa +15 @SRR060727.236848 SOLEXA7:7:24:1329:676 length=202 productive TRBV10-3 or TRBV6-1 or TRBV6-5 or TRBV6-6 120 100 25/25 nt TRBJ2-7 235 100 47/47 nt TRBD1 1 X X 11 X.X.11 [X.X.8.10] CAAGTGLSYEQYF in-frame + ctcccagacatctgtgtacttctgtgccgcggggacaggactctcctacgagcagtacttcgggccgggcaccaggctcacggtcacagaggacctgaaaataacgggtgggaacacgtttttcaggtcctctgtgaccgtgagcctggtgcccggcccgaagtactgctcgtaggagagtcctgtccccgcggcacagaag +16 @SRR060727.258473 SOLEXA7:7:27:271:1727 length=202 productive TRBV30 100 100 21/21 nt TRBJ1-4 201 88.24 45/51 nt TRBD1 2 X X 10 X.X.10 [X.X.7.10] CAAGQVGEKLFF in-frame + gactctggcttctatctctgtgccgcgggacaagtgggtgaaaaactgttttttggcagtggaacccagctctctgtcttggaggacctgaacaacgaggttaacgggtgggaacaccttgttcaggtcctccaagacagagagctgggttccactgccaaaaaacagtttttcacccacttgtcccgcggcacagagatag +17 @SRR060727.274111 SOLEXA7:7:28:1699:290 length=202 productive TRBV10-3 or TRBV6-1 or TRBV6-4 or TRBV6-5 or TRBV6-6 100 100 21/21 nt TRBJ1-1 222 95.83 46/48 nt TRBD1 1 X X 13 X.X.13 [X.X.7.10] CAAGPRAGTNTEAFF in-frame + cagacatctgtgtacttctgtgccgctggaccaagggcagggacgaacactgaagctttctttgtacaaggcaccagactcacagttgtagaggacctgaataacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtacaaagaaagcttcagtgttcgtccctgcccttggtccagcggca +18 @SRR060727.275014 SOLEXA7:7:29:152:1739 length=202 productive TRBV30 130 100 27/27 nt TRBJ1-1 195 89.58 43/48 nt TRBD2 3 X X 10 X.X.10 [X.X.9.10] CAAEGILAEAFF in-frame + ctcagtgactctggcttctatctctgtgccgccgagggtattttggctgaagctttctttggacaaggcaccagactcacagttgtagaggacctgaacaataacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttcagccaaaataccctcggcggcacagagatag +19 @SRR060727.281458_SOLEXA7:7:29:1133:1441_length=20 productive TRBV15 141 96.77 30/31 nt TRBJ1-1 222 95.83 46/48 nt TRBD1 1 X X 11 X.X.11 [X.X.10.10] CAAGGKRYTEAFF in-frame + atgcctgggggacgcagccatgtacctgtgtgccgcaggggggaaacggtacactgaagctttctttggacaaggcaccagactcacagttgtagaggacctaacgggtgggaacaccttgttcaggtcctctacaactgtgagtctggtgccttgtccaaagaaagcttcagtgtaccgtttcccccctgcggcacacagg +20 @SRR060727.283135_SOLEXA7:7:29:1539:1405_length=20 productive TRBV10-3 or TRBV6-1 or TRBV6-4 or TRBV6-5 or TRBV6-6 100 100 21/21 nt TRBJ2-3 200 89.8 44/49 nt TRBD2 1 X X 8 X.X.8 [X.X.7.10] CAAGEDTQYF in-frame + cagacatctgtgtacttctgtgccgccggggaggatacgcagtattttggcccaggcacccggctgacagtgctcgaggacctgaaaaacgtgttcccacctaacgggtgggaacacgtttttcaggtcctcgagcactgtcagccgggtgcctgggccaaaatactgcgtatcctccccggcggcacagaagtacacagat