| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 69.7% | ‑1.3 / 31.9 | 33 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (10/0); new base A (0/23); total (10/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.08e-08 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.89e-06 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAAC > NZ_CP009273/353520‑353685 | gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑ccgc > 2:1270217/1‑90 (MQ=255)gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑ccgc > 2:1248789/1‑90 (MQ=255) cacccGCGCTTTTACCCACCCCCATGTGAAAAAATCCCTCCGGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTtc < 2:964838/87‑1 (MQ=255) cacccGCGCTTTTACCCAACGCCATGTAAAAAAATCCCTTCGGGGGGGCTGTCTGCCATCTTTTTTCCCGCCCC‑AAAAAA‑A‑CCGCCGTtc < 2:820775/87‑1 (MQ=255) acCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGGCGC‑AACAAA‑A‑CCGCCGTtctc > 2:1553982/1‑90 (MQ=255) tATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCagtagct > 2:489412/1‑88 (MQ=255) tATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTg > 1:1459587/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:146648/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:1717409/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:1014234/1‑90 (MQ=255) aaaaaaTCCTTTCGGGGCGGCTGTCTCCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:1000084/89‑1 (MQ=255) aaaaaaTCCTTCCGGGGCGGTTGTCTGCCATTTTTTTTCCCGCCCA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:1859261/89‑1 (MQ=255) aaaaaaTCCTTCCGGGGCGGCTGTCTGCCAGTTTTTTTCCCCCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:943741/89‑1 (MQ=255) aaaaaTGCCTCCGGGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:195781/90‑1 (MQ=255) aaaaaTCCTTTCGGGGCGGCTGTCTCCCAGTTTTTTTCCCCCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:1244160/90‑1 (MQ=255) gCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAGAAAAAACtttt > 2:1435399/1‑89 (MQ=255) ctccgcgGCGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 2:1493385/87‑1 (MQ=255) cgccgcgGCGGCTGTATGCCATTTTTTTTCCCGCCCA‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 2:366904/87‑1 (MQ=255) cggcggcgGTTGGCTGCCACTTTTTTTCCCCCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:1335532/88‑1 (MQ=255) ccggggcggtTTTCTGCCATTTTTTTCCCCCCCGC‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:1176685/86‑1 (MQ=255) cggcTGTCGGCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAt < 2:153258/90‑1 (MQ=255) gcTGTCTCCCATTTTTTTTCCCCCCGA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 2:168203/90‑1 (MQ=255) ttatttcCCGCCCC‑AAAAAACC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATc < 2:345322/87‑1 (MQ=255) tttttcCCCCCGA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:1264663/89‑1 (MQ=255) tttttcCCCCCCC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:1059057/89‑1 (MQ=255) tttttcCCCCCAC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:541343/89‑1 (MQ=255) tttttCCCCCCCAAAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:363384/90‑1 (MQ=255) tttttCCCCCCA‑AAAAAA‑ACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:997192/90‑1 (MQ=255) ttttCCGCCAC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 2:1717410/90‑1 (MQ=255) tttcCCCCCGA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 1:1395519/90‑1 (MQ=255) tcccgcccA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctgct < 2:655800/88‑1 (MQ=255) cccgccaA‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGctgctg < 1:1505347/89‑1 (MQ=255) cgc‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAGAAAAAAATTTTAACCCGCCATGTTTTTTTGGGAACGCTGCTgggtaa > 2:359701/1‑86 (MQ=255) | GCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAAC > NZ_CP009273/353520‑353685 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |