| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | REL606 | 2,296,329 | 0 | A | C | 28.8% | 139.2 / 15.8 | 59 | intergenic (‑149/‑66) | inaA/yfaH | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (41/1); new base C (0/17); total (41/18) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.49e-14 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CGTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGAAGTT > REL606/2296256‑2296402 | cGTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTccacc > 2:1351662/1‑76 (MQ=255) gTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTccacca < 2:528547/76‑1 (MQ=255) gTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTccacca < 1:467327/76‑1 (MQ=255) gTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTccacca < 1:1619748/76‑1 (MQ=255) gTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTccacca < 1:155728/76‑1 (MQ=255) aTTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGc < 2:154261/76‑1 (MQ=255) tAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGcca > 1:347458/1‑76 (MQ=255) aTGAATTTCTTTTGCCACTACTAGCGTGACCCCGCTTTTCCCCTTCATTGGCAGCGCATAGATTCCCCCAGccact < 2:516687/76‑1 (MQ=255) aTGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccact > 1:1878069/1‑76 (MQ=255) aTGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccact > 1:1706522/1‑76 (MQ=255) gAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccactac > 1:1029045/1‑76 (MQ=255) aaTTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccactacc > 2:1845875/1‑76 (MQ=255) tttCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccactaccac > 2:1578543/1‑76 (MQ=255) tCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccactaccacta > 1:1788194/1‑76 (MQ=255) cTTTTGCCACTACTAGCGTGACACCGCTTTTCCCCTTCATTTGCAGCGCATAGATTCCCCCAGCCACTACCACTaa < 1:65854/76‑1 (MQ=255) cTTTTCCCACTACTAGCGTGACCCCGCTTTTCCCCTTCATTTGCAGCGCATAGATTCCCCCAGCCACTACCACTaa < 2:219180/76‑1 (MQ=255) ttttGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAAt > 1:801067/1‑76 (MQ=255) tttGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATa > 2:1343733/1‑76 (MQ=255) ttGCCACTACTAGCGTGACACCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAg < 2:733417/76‑1 (MQ=255) gCCACTACTAGCGTGACACCGCTTTTCCCCTTCATTTGCAGCGCATAGATTCCCCCAGCCACTACCACTAATAGTg < 2:948597/76‑1 (MQ=255) ccACTACTAGCGTGACACCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTgc < 1:1673582/76‑1 (MQ=255) tactaGCGTGACCCCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGccc < 1:1492168/76‑1 (MQ=255) ctaGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAg > 1:387694/1‑76 (MQ=255) ctaGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAg > 1:31063/1‑76 (MQ=255) ctaGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAg > 1:314626/1‑76 (MQ=255) taGCGTGACCCCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGt < 2:1496583/76‑1 (MQ=255) taGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGt > 1:5878/1‑76 (MQ=255) gCGTGACACCGCTTTTCCCCTCCATTTGCAGCGAATAGATTCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAg < 1:1742628/76‑1 (MQ=255) gTGACCCCGCTTTTACCCTTCATTGGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGAt < 1:173185/76‑1 (MQ=255) gTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTCGAt > 1:1272584/1‑76 (MQ=255) gTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGAt > 1:617553/1‑76 (MQ=255) gTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGAt > 1:1360573/1‑76 (MQ=255) tGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATa > 2:445818/1‑76 (MQ=255) gACACCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATaa < 1:1097256/76‑1 (MQ=255) accccGCTTTTCCCCTTCATTTGCAGCGCATAGATTCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATaaa < 1:1546392/73‑1 (MQ=255) acacCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATaaa > 1:347843/1‑76 (MQ=255) ttttACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGaa > 1:1782755/1‑76 (MQ=255) tttCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAt < 2:482334/76‑1 (MQ=255) ttACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAtt > 1:1677340/1‑76 (MQ=255) tACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAttt > 1:65510/1‑76 (MQ=255) tACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAttt > 1:278228/1‑76 (MQ=255) aCCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTa > 1:1770907/1‑76 (MQ=255) aCCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTa > 2:161135/1‑76 (MQ=255) cccTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTaa > 2:800101/1‑76 (MQ=255) cccTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTaa < 2:355844/76‑1 (MQ=255) cccTTCATTGCCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTaa < 2:1741789/76‑1 (MQ=255) tCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAg > 1:14097/1‑76 (MQ=255) cATTTGCAGCGCATAGATTCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGt < 1:1343733/76‑1 (MQ=255) cATTTGCAGCGCATAGATTCCACCAGCCACTACTACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGt > 1:1256237/1‑76 (MQ=255) cATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGt > 1:1595910/1‑76 (MQ=255) cATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGt > 1:55336/1‑76 (MQ=255) tGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGa > 1:561495/1‑76 (MQ=255) tGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGa > 2:1601926/1‑76 (MQ=255) tGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGa > 1:1169750/1‑76 (MQ=255) gCAGCGCAGAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGAt < 1:208369/76‑1 (MQ=255) gCAGCGAATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGAt < 1:1300005/76‑1 (MQ=255) cgcATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAg > 2:1232863/1‑76 (MQ=255) ccATAAATACCCCCAGCCACTACCACTAGTAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGc < 2:182802/75‑1 (MQ=255) cATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCg > 2:1363371/1‑76 (MQ=255) cATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCg > 1:313973/1‑76 (MQ=255) aTAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGa > 1:176593/1‑76 (MQ=255) tAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGAt > 2:994152/1‑76 (MQ=255) aGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATg > 1:1216708/1‑76 (MQ=255) aGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATg > 1:949204/1‑76 (MQ=255) gATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGa > 1:1454084/1‑76 (MQ=255) gATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTACATAAAATGTGAATTTAATCAGTCGGATACAGCGATGa > 2:760622/1‑76 (MQ=255) ccaccaGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGAAGtt > 1:498113/1‑76 (MQ=255) | CGTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGAAGTT > REL606/2296256‑2296402 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |