| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,267,283 | 0 | A | T | 60.0% | ‑5.4 / 13.8 | 15 | V8E (GTA→GAA) | chaA | sodium‑potassium/proton antiporter ChaA |
| Reads supporting (aligned to +/- strand): ref base A (0/6); new base T (9/0); total (9/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.00e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.74e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
AGTGTCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGTTTTTACCGCCTCTTGAGCATTTGACA‑TTA‑TGGTTATCCCTTTGCAGATGAATTTATCGAAAATGTAAAAAATAGGTAGGAAAAATAACAGAAA > NZ_CP009273/1267199‑1267371 | aGTGTCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGTTTTTACCGcc < 2:187030/90‑1 (MQ=255) gtgtCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGGTTTTTCccccc > 2:355790/1‑89 (MQ=255) cTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGGTTTTTTCCCCTCttt > 1:480985/1‑89 (MQ=255) acaGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGTTTTTACCGCCTCTTGAGCATTTGACA‑TTa < 1:153921/90‑1 (MQ=255) cAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGTTTTTACCGCCTCTTGAGCATTTGACA‑TTA‑TGGTTAt < 2:160885/90‑1 (MQ=255) aggCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGTTTTTACCGCCTCTTGAGCATTTGACA‑TTA‑TGGTTAt < 1:552419/88‑1 (MQ=255) aCCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGGTTTTTTCCCCCCTTTTGCATTTTTCA‑TTATTGTTTTTCCCttt > 1:740452/1‑90 (MQ=255) aGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGCGGGGTTTTTTCCCCCCCTT‑AGCATTTTACA‑TTT‑TTGTTTTTCCTTTTCAg > 2:135336/1‑90 (MQ=255) aGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGGTTTTTTCCCCCCTTTAGCATTTTTCATTTT‑TGGTTTTCCttttctg > 2:30709/1‑87 (MQ=255) cgcCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGGTTTTTTCCCCTCTTGGGCATTTTACA‑TTT‑TTGTTTTCCCCTTGCACAt > 1:726369/1‑90 (MQ=255) gggAAAATAAGCGAAGTCTCCTTGTGGC‑GGGGTTTTTCCGCCCCTTGAGCATTTTACA‑TTA‑TGGTTTTTCCTTTTCAGAAGGATTTAttg > 1:116910/1‑88 (MQ=255) gggAAAATAAGCGAAGTCTCCTTGTGGC‑GGGGTTTTTCCCCCTCTTGTGCATTTGACA‑TTT‑TGGTTTTTCCTTTGCAGATGAAttttttg > 1:265420/1‑86 (MQ=255) gggAAAATAAGCGAAGTCTCCTTGTGGC‑GGGGTTTTTCCCCCCCTTTTGCAATTTAAA‑TTT‑TTGTTTTTCCTTTTCGGATGGAATTAttg > 2:510631/1‑88 (MQ=255) aGTCTCCTTGTGGC‑GGGTTTTTACCGCCTCTTGAGCATTTGACA‑TTA‑TGGTTATCCCTTTGCAGATGAATTTATCGAAAATGTAAAAAAt < 2:740452/90‑1 (MQ=255) tACCGCCTCTTGAGCATTTGACA‑TTA‑TGGTTATCCCTTTGCAGATGAATTTATCGAAAATGTAAAAAATAGGTAGGAAAAATAACAGaaa < 2:413370/90‑1 (MQ=255) | AGTGTCTGGCTGCTTCCCCACAGGAACAGCACTACCAGCGCCAGAACCGGGAAAATAAGCGAAGTCTCCTTGTGGC‑GGGTTTTTACCGCCTCTTGAGCATTTGACA‑TTA‑TGGTTATCCCTTTGCAGATGAATTTATCGAAAATGTAAAAAATAGGTAGGAAAAATAACAGAAA > NZ_CP009273/1267199‑1267371 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |