| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,598,494 | 0 | C | T | 55.6% | ‑1.8 / 18.1 | 18 | S64L (TCG→TTG) | lsrD | autoinducer 2 ABC transporter permease LsrD |
| Reads supporting (aligned to +/- strand): ref base C (2/6); new base T (10/0); total (12/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.51e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.38e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTGTTCAGCACCAGTGACTTTATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGATCGATATTTCGTTTGGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGCGTACTGTTTCAAAGTGGTGTGCCGATGCCGCTGGCGATACTCCTGACC > NZ_CP009273/1598409‑1598582 | cTGTTCAGCACCAGTGACTTTATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGGTCGGTATTTTGttt > 2:107529/1‑90 (MQ=255) gTTCAGCACCAGTGACTTTATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGGTCGGTATTTTGttttg > 1:127004/1‑88 (MQ=255) gTTCAGCACCAGTGACTTTATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGGTCGGTATTTTGttttg > 2:160383/1‑88 (MQ=255) gCACCAGTGACTTTATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGGGCGGTATTTTTTTTTGtttgg > 2:195837/1‑87 (MQ=255) aGTGACTTTATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGGTCGGTATTTTGTTTTGTTTCACCATc > 2:212315/1‑90 (MQ=255) gTGACTTTATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGATCGATATTTCGTTTGGTTCGACCATCg < 1:319928/90‑1 (MQ=255) ttATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGGTCGGTATTTTGTTTGGTTTGACCATCGGCctct > 1:241659/1‑90 (MQ=255) gcattggcattgTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGGGTGATATTTTGTTTTGTTCGGCCATCGCCCTCTGCGccc > 2:464722/1‑89 (MQ=255) gcattgTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGATCGATATTTCGTTTGGTTCGACCATCGGCCTCTGCGCcattgcat < 1:195837/90‑1 (MQ=255) tgTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGGGCGATATTTTGTTTTGTTCGACCCCCCGCCCCTTCGCCCCTGCATTtgg > 2:38547/1‑90 (MQ=255) tgTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGATCGATATTTTGTTTTGGTCGACCATCGGGCTCTGCCCCCTTGCATTggg > 2:221639/1‑90 (MQ=255) cccTACCGCTAACGATGGTGATTGTCAGTGGCGGGATCGATATTTCGTTTGGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGCGTAc < 1:19070/90‑1 (MQ=255) ccGCTAACGATGGTGATTGTCAGTGGCGGGATCGATATTTCGTTTGGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGCGTACTGttt < 1:19021/90‑1 (MQ=255) tGGTGATTGTCAGTGGCGGGATCGATATTTTGTTTTGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGGGGACTGTTTTAAAgggggg > 1:273307/1‑88 (MQ=255) tCGATATTTCGTTTGGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGCGTACTGTTTCAAAGTGGTGTGCCGATGCCGCTGGCGATAc < 1:302164/90‑1 (MQ=255) atatTTCGTTTGGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGCGTACTGTTTCAAAGTGGTGTGCCGATGCCGCTGGCGATACTcc < 1:160383/90‑1 (MQ=255) tttCGTTTGGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGCGTACTGTTTCAAAGTGGTGTGCCGATGCCGCTGGCGATACTCCTGa > 2:452165/1‑90 (MQ=255) tCGTTTGGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGCGTACTGTTTCAAAGTGGTGTGCCGATGCCGCTGGCGATACTCCTGAcc > 2:337476/1‑90 (MQ=255) | CTGTTCAGCACCAGTGACTTTATCTGCATTGGCATTGTCGCCCTACCGCTAACGATGGTGATTGTCAGTGGCGGGATCGATATTTCGTTTGGTTCGACCATCGGCCTCTGCGCCATTGCATTGGGCGTACTGTTTCAAAGTGGTGTGCCGATGCCGCTGGCGATACTCCTGACC > NZ_CP009273/1598409‑1598582 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |