Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_000913 | 3,401,459 | 0 | T | C | 22.0% | 115.1 / 12.0 | 59 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
Reads supporting (aligned to +/- strand): ref base T (35/11); new base C (0/13); total (35/24) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 6.17e-07 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Rejected as consensus: Frequency below/above cutoff threshold. |
GCGAGCAGACAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCAGCAGCTGGTTCTCCGTT > NC_000913/3401321‑3401596 | gCGAGCAGACAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATc > 1:201779/1‑140 (MQ=255) gACAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGc < 1:243568/140‑1 (MQ=255) gACAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCAAAAAAATCCCCTTGc < 1:649905/140‑1 (MQ=255) cAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGccc < 2:447540/140‑1 (MQ=255) cAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGccc < 2:40174/140‑1 (MQ=255) cAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAACCCCCTTGccc < 2:1353437/140‑1 (MQ=255) cAAGCACACCCCCATGACACGCAGCCCGCATTATTCTACGTGAAAACGGTTTAACCGGCAGGTAAACCCGAGTATCTTTGTGAATATTTTTCCCCGTTGGTATCAAGTGGCTGGGAGGACGCGAAAAAACCCCCTTGccc < 2:860462/140‑1 (MQ=255) aaGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCg > 1:674269/1‑140 (MQ=255) aGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGc < 2:201779/140‑1 (MQ=255) tCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAac > 2:384027/1‑140 (MQ=255) cccATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAaca < 1:27226/140‑1 (MQ=255) ccATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAACCCCCTTGCCCGCCTGTAacac < 2:1316894/140‑1 (MQ=255) aTGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACcg > 2:1238515/1‑140 (MQ=255) aTGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTAGCCCGCCTGTAACACcg > 1:1204257/1‑140 (MQ=255) tGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACcgc > 1:664555/1‑140 (MQ=255) gagcCGCAGCGCGCTTTATTCTACGTAAAAACGGATTAACCGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCAGGTTAGTATCAAGTGGCTGGGAGGACGCGAAAAAACCCCCTTGCCCGCCTGTAACACcgcg < 2:1242316/140‑1 (MQ=255) cGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGa > 1:486948/1‑140 (MQ=255) cAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAAt > 2:1021546/1‑140 (MQ=255) cgcgcATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAg > 2:4324/1‑140 (MQ=255) cgcATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAggg > 2:75476/1‑140 (MQ=255) gcATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCAAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGt < 1:1052667/140‑1 (MQ=255) gTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGTATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACATCGCGCTGAATCAGGGTCTGCCACTCGCt > 1:1148507/1‑140 (MQ=255) gAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTc > 1:992838/1‑140 (MQ=255) aaaCGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTcgc > 1:10507/1‑140 (MQ=255) ggggaGGTGAAGCCGAGTGTCTTTGTGAATATTTTTCCATGTGAGTTTCACGGGGCTGTGAGGACGGAAAAAATTCCCCTGCCCCGCCTGTAACCCCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCg < 2:486948/136‑1 (MQ=255) cAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTg > 2:723387/1‑140 (MQ=255) gTTAAACCGATTATTTTTGTGAATTTTTTTTCACGTTATTATCAAGTGGCTGTGAGGACGCAAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCg < 2:1111799/140‑1 (MQ=255) tAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAACCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTa < 1:880436/140‑1 (MQ=255) aGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTgg > 2:912521/1‑140 (MQ=255) gTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTggg > 2:262651/1‑140 (MQ=255) gTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTggg > 1:953549/1‑140 (MQ=255) gTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTggg > 1:771094/1‑140 (MQ=255) gTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCGGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACTCACGCCGGTGGCGTAAACCTggg > 2:613476/1‑140 (MQ=255) cTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCt < 1:75476/140‑1 (MQ=255) tgAATTTTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAACCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTcc < 1:1362839/140‑1 (MQ=255) tgAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTcc > 1:724947/1‑140 (MQ=255) tgAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAACCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTcc < 2:724947/140‑1 (MQ=255) catattttttttCAGGTTAGTATCAAGTGGTTGTGGGGACGCAAAAAAACCCCCTGCCCCGCCTGTAACACCGCGCTGAATCAGGGTCTTCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTcc < 2:1351127/134‑1 (MQ=255) aaTTTTTTTTCACGTTAGTATCAAGTGGCTGGGAGGCCGCAAAAAACCCCCCTGGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCg < 2:461736/140‑1 (MQ=255) atTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAACCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAg < 2:10507/140‑1 (MQ=255) ttttttCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGc > 2:132187/1‑140 (MQ=255) ttCCCGTTAGTATAAAGGGGCTGTGAGGACGCAAAAAAACCCCCTGGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGc < 2:812815/140‑1 (MQ=255) ctttAGTATCAAGTGGCTGTGAGGACGCGAAAAAACCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTcc < 1:329860/138‑1 (MQ=255) cGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTTCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCtctg > 1:1351127/1‑137 (MQ=255) ttAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTccac > 1:232931/1‑140 (MQ=255) aGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTg > 1:554281/1‑140 (MQ=255) aGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCAGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTg > 1:1149664/1‑140 (MQ=255) gTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGa < 1:262651/140‑1 (MQ=255) tGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGaa > 1:701746/1‑140 (MQ=255) tGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCCGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGaa > 1:481931/1‑140 (MQ=255) gCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAAcc > 1:386378/1‑140 (MQ=255) gCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAAcc > 1:494167/1‑140 (MQ=255) gCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAAcc > 1:885440/1‑140 (MQ=255) cTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACca > 1:365857/1‑140 (MQ=255) cTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACca > 2:1378228/1‑140 (MQ=255) cTGTGAGGACGCAAAAAAACCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACca < 2:774990/140‑1 (MQ=255) aGGACGCAAAAAACCCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCagcagc < 2:365857/140‑1 (MQ=255) gACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCAGCAGCTg > 2:669872/1‑140 (MQ=255) aCGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCAGCAGCTgg > 2:237576/1‑140 (MQ=255) cgcgAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCAGCAGCTGGt > 1:843191/1‑140 (MQ=255) gcgAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCAGCAGCTGGtt > 1:436129/1‑140 (MQ=255) aaTCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCAGCAGCTGGTTCTCCGtt < 1:613476/140‑1 (MQ=255) aaTCCCCTTGCCAGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCAGCAGCTGGTTCTCCGtt < 2:1149664/140‑1 (MQ=255) | GCGAGCAGACAAGCACACTCCCATGAGACGCAGCGCGCATTATTCTACGTGAAAACGGATTAAACGGCAGGTTAAACCGAGTATCTTTGTGAATATTTTTTCACGTTAGTATCAAGTGGCTGTGAGGACGCGAAAAAATCCCCTTGCCCGCCTGTAACACCGCGCTGAATCAGGGTCTGCCACTCGCTTCGCGAACGCACGCCGGTGGCGTAAACCTGGGTGCTGGTCCCGGAGCAGGCTTCCACCAGGCTTTGAACCAGCAGCTGGTTCTCCGTT > NC_000913/3401321‑3401596 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |