| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 1,313,113 | 0 | A | T | 33.3% | 14.7 / 15.9 | 18 | intergenic (+17/+280) | rny/USA300HOU_1219 | possible hydrolase/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (6/6); new base T (2/4); total (8/10) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.38e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
AAAATCTTATCGATTGGCTAGAGATATTAAAAATCAGATTGAAGATGAATTACAATATCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGTAATAACTATATTAAACAGTAGTTATTTGAAAGTAAGACGGACCTT > CP000730/1312979‑1313219 | aaaaTCTTATCGATTGGCTAGAGATATTAAAAATCAGATTGAAGATGAATTACAATATCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACTAAtttg < 2:308161/141‑3 (MQ=255) aTCGATTGGCTAGAGATATTAAAAATCAGATTGAAGATGAATTACAATATCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAg > 1:150188/1‑141 (MQ=255) tCGATTGGCTAGAGATATTAAAAATCAGATTGAAGATGAATTACAATATCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGc < 2:318070/141‑1 (MQ=255) agaTATTAAAAATCAGATTGAAGATGAATTACAATATCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACTAATTTGTGAGGGAgacaaaaattattt < 1:369293/141‑14 (MQ=38) aTTGAAGATGAATTACAATATCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGtt > 2:331667/1‑141 (MQ=255) ggAATTACAATATCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGGGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCa < 2:319006/140‑1 (MQ=255) tCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATAGGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGtaa > 1:29233/1‑141 (MQ=255) cATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGTAATAACtat > 1:149813/1‑141 (MQ=255) cAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACTAAtt > 1:240888/1‑62 (MQ=255) cAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACTAAtt > 1:240960/1‑62 (MQ=255) cAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACTAAtt < 2:240888/62‑1 (MQ=255) cAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACTAAtt < 2:240960/62‑1 (MQ=255) cAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGTAATAACTATATTAAACagtagg < 1:283627/141‑2 (MQ=255) cAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCCCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGCTAATAACTATATTAAACagtagt < 1:96337/141‑1 (MQ=255) gagagaCTAGAGCAGTAGAATATGTGAAATTATTTTTTTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGTAATAACTATATTAAACAGTAGTTATTTGaaa < 2:293927/141‑1 (MQ=255) agCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGTAATAACTATATTAAACAGTAGTTATTTGAAAGTAAGACGGa < 1:10349/141‑1 (MQ=255) cAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGTAATAACTATATTAAACAGTAGTTATTTGAAAGTAAGACGGAcc > 1:206146/1‑141 (MQ=255) gTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGTAATAACTATATTAAACAGTAGTTATTTGAAAGTAAGACGGACCtt > 1:75716/1‑141 (MQ=255) | AAAATCTTATCGATTGGCTAGAGATATTAAAAATCAGATTGAAGATGAATTACAATATCCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAATTTTTGTCTCCCTCACAAATTAGTGAGGGAGCTTTTTTAAGTTGTAGTCTTAATCTAGTTAGACAGCACTTTATCGGTAATAACTATATTAAACAGTAGTTATTTGAAAGTAAGACGGACCTT > CP000730/1312979‑1313219 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |