| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | REL606 | 2,296,329 | 0 | A | C | 47.7% | 38.5 / 34.1 | 44 | intergenic (‑149/‑66) | inaA/yfaH | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (21/2); new base C (0/21); total (21/23) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.26e-10 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GTCGTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGAAGTTTA > REL606/2296254‑2296404 | gtCGTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTcca < 1:1323116/76‑1 (MQ=255)gtCGTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTcca > 1:449082/1‑76 (MQ=255) cGTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTccacc > 1:1477437/1‑76 (MQ=255) ttAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGcc < 2:1631262/76‑1 (MQ=255) aaTGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccac > 1:592868/1‑76 (MQ=255) aTGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccact > 1:139682/1‑76 (MQ=255) tGAATTTCTTTTGCCACTACTAGCGTGACCCCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGccacta < 2:499528/76‑1 (MQ=255) tGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccacta > 1:1458330/1‑76 (MQ=255) aTTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccactacca > 2:1719608/1‑76 (MQ=255) ttCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGccactaccact > 1:1592962/1‑76 (MQ=255) tttGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCCCCAGCCACTACCACTAATa < 1:1723134/76‑1 (MQ=255) ccACTACTAGCGTGACCCCGCTTTTACCCTTCATTTGCAGCGCATAGATCCCACCAGCCACTACCACTAATAGTgc < 2:764888/76‑1 (MQ=255) tactaGCGTGCCCCCGCTTTTCCCCTTCATTTGCAGCGCATAGATTCCCCCAGCCACTACCACTAATAGTGCGccc < 2:478081/76‑1 (MQ=255) actaGCGTGCCCCCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCa < 1:1267530/76‑1 (MQ=255) actaGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCa > 2:1596692/1‑76 (MQ=255) actaGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCa > 1:507448/1‑76 (MQ=255) actaGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCa > 1:1554225/1‑76 (MQ=255) taGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGt > 2:680149/1‑76 (MQ=255) aGCGTGACCCCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTa < 2:1005623/76‑1 (MQ=255) aGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTa > 2:1762820/1‑76 (MQ=255) aGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTa > 2:356761/1‑76 (MQ=255) gTGACCCCGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGAt < 1:1369366/76‑1 (MQ=255) tGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATa > 1:407945/1‑76 (MQ=255) tGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATa > 1:151958/1‑76 (MQ=255) tGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATa > 1:575942/1‑76 (MQ=255) cccccGTTTTTCCCCTTCATTGCCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATaaa < 2:841450/73‑1 (MQ=255) cccccGCTTTTCCCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATaaa < 1:881483/73‑1 (MQ=255) accccGCTTTTACCCTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATaaa < 1:230776/73‑1 (MQ=255) ttttACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGaa > 1:1674723/1‑76 (MQ=255) ttccccTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAtt < 2:1391382/73‑1 (MQ=255) tccccTTCATTTGCAGCGCATAGATTCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAttt < 2:1421585/74‑1 (MQ=255) tccccTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAttt < 2:476010/74‑1 (MQ=255) tACCCTTCATTTGCAGGGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAttt < 2:1520762/76‑1 (MQ=255) tACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAAttt > 1:201103/1‑76 (MQ=255) ccccTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTa < 1:1122629/75‑1 (MQ=255) cTTCATTTGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATc < 2:753356/76‑1 (MQ=255) tttGCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCg < 2:1207525/76‑1 (MQ=255) tttGCAACGCAAAGACCCCCCCAGCCACTTCCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCg < 2:515065/76‑1 (MQ=255) ttggCAGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCg < 1:982416/73‑1 (MQ=255) tGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGa > 2:390246/1‑76 (MQ=255) gCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGAt > 1:885700/1‑76 (MQ=255) aGCGCATAGTTCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATAc < 2:1764281/76‑1 (MQ=255) aGCGCATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATAc < 2:736324/76‑1 (MQ=255) gcgcATAGATTCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACa < 1:1512999/76‑1 (MQ=255) gcgcATAGATCCCCCCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACa < 1:1157729/76‑1 (MQ=255) cgcATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAg > 1:128547/1‑76 (MQ=255) aTAAATTTCACCAACCACTACCACCAAAAATGCGCCCCGTAGAAAAAAAGTGGATTTTATTAATCGGATACAGCgg > 2:543944/1‑75 (MQ=255) aGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATg > 1:853/1‑76 (MQ=255) gATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGa > 1:557092/1‑76 (MQ=255) ccaccaGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGAAGtt > 2:68823/1‑76 (MQ=255) ccaccaGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGAAGtt > 1:1046609/1‑76 (MQ=255) accaGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGAAGTTTa > 1:886105/1‑76 (MQ=255) | GTCGTATTAATGAATTTCTTTTGCCACTACTAGCGTGACACCGCTTTTACCCTTCATTTGCAGCGCATAGATTCCACCAGCCACTACCACTAATAGTGCGCCCAGTAGATAAAATGTGAATTTAATCAGTCGGATACAGCGATGAAGTTTA > REL606/2296254‑2296404 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |