| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,586 | 0 | A | T | 41.2% | 36.8 / 18.6 | 34 | N272K (AAT→AAA) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base A (15/5); new base T (0/14); total (15/19) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 9.80e-06 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
AGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAT > NZ_CP009273/353497‑353659 | aGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTa > 2:213152/1‑90 (MQ=255)aGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTa > 1:259599/1‑90 (MQ=255)aGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTa > 2:339651/1‑90 (MQ=255)aGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTa > 2:36606/1‑90 (MQ=255)aGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTa > 2:195241/1‑90 (MQ=255) gCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAt > 2:332501/1‑90 (MQ=255) cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 2:102818/1‑90 (MQ=255) cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 1:287325/1‑90 (MQ=255) cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 1:388346/1‑90 (MQ=255) cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 1:88118/1‑90 (MQ=255) tACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTc > 1:193228/1‑90 (MQ=255) gTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgcc < 1:132722/90‑1 (MQ=255) gTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgcc > 2:10200/1‑90 (MQ=255) gTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgcc < 1:449017/90‑1 (MQ=255) gTGATTCATTTCCGCCAACAACCCCCCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgcc < 1:95447/90‑1 (MQ=255) gATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCcgccgc > 2:327135/1‑90 (MQ=255) attcattcCCGCCAACAACCGCCCTTTTACCCAACGCCATGGGCAAAAAGGCCTTCGCGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGca < 2:341104/90‑1 (MQ=14) tCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaac > 1:199927/1‑90 (MQ=255) aTTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaacaa > 2:21503/1‑90 (MQ=255) aacaacCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGt > 2:57034/1‑90 (MQ=255) aacaacCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGt > 2:35415/1‑90 (MQ=255) cacccGCGCTTTTACCCACCCCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTtc < 1:130638/87‑1 (MQ=21) cacccGCGCTTTTACCCAACGCCTTGTAAAAAAATGCCTTCGCGGGGGCTGTCTGCCAGTTTTTTTTCCGCCCAAAAAAAACCGCCGTtc < 1:439003/87‑1 (MQ=16) cacccGCGCTTTTACCCAACGCCATGTACAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTtc < 1:327135/87‑1 (MQ=21) cacccGCGCTTTTACCCAACGCCAGGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTCCCGCCGCAACAAAACCGCCGTtc < 1:52638/87‑1 (MQ=25) cacccGCGATTTTACCCAACCCCTTGTGAAAAAATCCTTTCGGGGCGGTTGTCTGCCACTTTTTTTTCCGCCGCAAAAAAACCGCCGTtc < 1:36606/87‑1 (MQ=255) cccGCGCTTTTACCAACCCCCTTGTAAAAAAATCCTTTCGGGGCGGCTGTCGGCCAGTTTTTTTCCCCCCGCAAAAAAACCGCCGTtctc < 1:102818/89‑1 (MQ=255) ccGCGCATTTCCCCAACCCAAGGTAAAAAAATGCCTTCGGGGCGGCTGTCTCCCATCTTTTTTCCCGCCGAAAAAAAACCGCCGTtctct < 1:458444/90‑1 (MQ=16) gcccATTTACCCAACGCCATGTGAAAAAATGCCTCCGCGGCGGCTGCCTGCCAGCTTTTTTCCCGCCGCAACAAAACCGCCGTTCTCTcc < 1:7075/87‑1 (MQ=255) aCGCCATGTGCTAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 2:329467/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 1:163562/1‑90 (MQ=255) cccATGTGAAAAAATCCCTCCGCGGCGGCTGTCCGCCAGCTTTTTTCCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCa < 1:213152/89‑1 (MQ=255) aTGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGca < 2:308270/52‑1 (MQ=255) aTGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGca > 1:308270/1‑52 (MQ=255) gCCTCCGGGGCGGCTGTCCCCCAGTTTTTTTCCCCCCCAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTa < 1:324677/90‑1 (MQ=255) tCGCGGCGGCTGTCTCCCAGTTTTTTTCCCGCCCCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:157136/90‑1 (MQ=255) ggggggcTTTCGGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGt < 1:216078/86‑1 (MQ=255) ggggcTGTCTGCCAGTTTTTTTCCCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 1:112372/88‑1 (MQ=255) gggcTTTCTGCCATTTTTTTTCCCCCCAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAt < 2:43288/89‑1 (MQ=255) | AGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAT > NZ_CP009273/353497‑353659 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |