| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 1,386,326 | C→T | R27C (CGC→TGC) | pgrR → | DNA‑binding transcriptional regulator PgrR |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,386,326 | 0 | C | T | 98.1% | 191.5 / ‑4.3 | 53 | R27C (CGC→TGC) | pgrR | DNA‑binding transcriptional regulator PgrR |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (29/23); total (29/24) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.53e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.55e-01 | |||||||||||
AAATCATGATTAGACCTATCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTTGTCTGTTCTT > NZ_CP009273/1386193‑1386460 | aaaTCATGATTAGACCTATCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAgcctgcct > 2:852549/1‑138 (MQ=255) gATTAGACCTATCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATgg > 1:662127/1‑139 (MQ=255) aCCTATCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGt < 2:662127/139‑1 (MQ=255) aCCTATCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGt > 2:536977/1‑139 (MQ=255) ccTATCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTc < 1:765916/139‑1 (MQ=255) aTCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGc > 1:671025/1‑139 (MQ=255) aTCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGc > 1:1264388/1‑139 (MQ=255) aTCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGc > 1:241724/1‑139 (MQ=255) tCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCt > 1:266909/1‑139 (MQ=255) tCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCt > 1:380193/1‑139 (MQ=255) tAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAg > 2:1242423/1‑139 (MQ=255) ttAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATa < 1:511834/139‑1 (MQ=255) gATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg < 2:234645/138‑1 (MQ=255) gATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg < 1:976962/138‑1 (MQ=255) tGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATgg < 2:1134367/107‑1 (MQ=255) tGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATgg > 1:1134367/1‑107 (MQ=255) tGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcgtcg > 2:133327/1‑138 (MQ=255) tGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg > 1:237708/1‑135 (MQ=255) tGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg < 2:237708/135‑1 (MQ=255) aTACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg > 1:1010213/1‑126 (MQ=255) aTACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg < 2:1010213/126‑1 (MQ=255) aCTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAAc > 2:350684/1‑138 (MQ=255) cTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg < 2:306624/123‑1 (MQ=255) cTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg > 1:306624/1‑123 (MQ=255) cTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGa > 1:983640/1‑139 (MQ=255) cTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGATTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGa > 1:1211527/1‑139 (MQ=255) aatgaaGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGAt < 2:241724/137‑1 (MQ=255) aatgaaGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGAt > 2:973409/1‑137 (MQ=255) aatgaaGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGAt < 1:973409/137‑1 (MQ=255) tgaaGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAgcctgcct > 2:351472/1‑82 (MQ=255) tgaaGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAgcctgcct < 1:351472/82‑1 (MQ=255) gCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGt < 2:525471/92‑1 (MQ=255) gCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGt > 1:525471/1‑92 (MQ=255) cGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGc > 1:217772/1‑139 (MQ=255) cGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGGATAGAAGAACGATTGGGATTGc > 2:1011095/1‑139 (MQ=255) gaagaaATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGcc < 1:893727/100‑1 (MQ=255) gaagaaATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGcc > 2:893727/1‑100 (MQ=255) agaaATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCtt < 2:10459/139‑1 (MQ=255) cGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcg > 2:83241/1‑139 (MQ=255) tgatctgatGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAgcctgcct < 1:733958/63‑1 (MQ=255) tgatctgatGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAgcctgcct > 2:733958/1‑63 (MQ=255) gTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGc < 2:285649/139‑1 (MQ=255) tttGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCg < 2:851056/139‑1 (MQ=255) gtcgtcGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgtt < 1:852549/138‑1 (MQ=255) tcgtcgTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttgt > 1:68164/1‑139 (MQ=255) ggagCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg > 1:1139006/1‑69 (MQ=255) ggagCGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGcg < 2:1139006/69‑1 (MQ=255) cGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGc > 1:1281429/1‑138 (MQ=255) cGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGc > 1:1011160/1‑138 (MQ=255) cGTAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGc > 2:495414/1‑138 (MQ=255) tAGCTTCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAg < 1:536977/139‑1 (MQ=255) tCACTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCt > 2:95629/1‑139 (MQ=255) cTCGTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCtttt > 2:459107/1‑139 (MQ=255) gTGCAGCAGCCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTTGt < 2:380193/138‑1 (MQ=255) cagcCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTTGTCTGTTCt < 1:377145/139‑1 (MQ=255) cagcCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTTGTCTGTTCt < 2:1011160/139‑1 (MQ=255) cagcCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGGCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCTAACTGAAGCGGGCGAGCATCTTTTGTCTGTTCt < 2:1258219/139‑1 (MQ=255) agcCTGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTTGTCTGTTCtt < 1:350684/139‑1 (MQ=255) | AAATCATGATTAGACCTATCATTTAAATGATTAATAGATTGCATGGAGATACTGAATGAAGCGTGAAGAAATCGCTGATCTGATGGCGTTTGTCGTCGTTGCAGAGGAGCGTAGCTTCACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTTGTCTGTTCTT > NZ_CP009273/1386193‑1386460 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |