| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | AP009048 | 2,866,110 | T→A | 100% | intergenic (‑20/+160) | rpoS ← / ← nlpD | RNA polymerase, sigma S (sigma 38) factor/predicted outer membrane lipoprotein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AP009048 | 2,866,110 | 0 | T | A | 100.0% | 225.5 / NA | 75 | intergenic (‑20/+160) | rpoS/nlpD | RNA polymerase, sigma S (sigma 38) factor/predicted outer membrane lipoprotein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (49/26); total (49/26) | |||||||||||
| Rejected as polymorphism: Frequency below/above cutoff threshold. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
CAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCA > AP009048/2866043‑2866172 | cAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAAt > 1:1467093/1‑70 (MQ=255)cAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAAt > 1:3294240/1‑70 (MQ=255) aaCACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTc > 1:6161166/1‑71 (MQ=255) acacacGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTc > 1:1557227/1‑70 (MQ=255) cacacGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTcta > 1:3526774/1‑71 (MQ=255) acacGCTGTGTGGCTTCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTctac > 1:4265064/1‑71 (MQ=255) cacGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTctact < 1:4004431/71‑1 (MQ=255) acGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTctacta < 1:2660604/71‑1 (MQ=255) cGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa < 1:3703494/71‑1 (MQ=255) gCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAg > 1:1102697/1‑71 (MQ=255) cTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAgg > 1:4143356/1‑71 (MQ=255) gtgtgGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTctact < 1:4532169/65‑1 (MQ=255) tgtgGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt > 1:7363272/1‑71 (MQ=255) tgGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCttt < 1:6849699/71‑1 (MQ=255) tgGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCttt < 1:4808620/71‑1 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTc > 1:7662683/1‑71 (MQ=255) cTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTc > 1:1921083/1‑70 (MQ=255) ccTGCGATAACAGTTCGTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTc > 1:3463790/1‑70 (MQ=255) ccTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTc < 1:1082128/70‑1 (MQ=255) ccTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTc > 1:1353357/1‑70 (MQ=255) ccTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTc > 1:5147716/1‑70 (MQ=255) ttcGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGt > 1:845939/3‑67 (MQ=255) cGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa > 1:1724406/1‑54 (MQ=255) cGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa > 1:3496009/1‑54 (MQ=255) cGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGt > 1:5939726/1‑65 (MQ=255) cGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaaaa < 1:631465/70‑1 (MQ=255) cGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaaa < 1:4363174/69‑1 (MQ=255) gATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTctact < 1:6966330/51‑1 (MQ=255) gATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAAc > 1:4093546/1‑71 (MQ=255) gATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAAc > 1:2466056/1‑71 (MQ=255) aTAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCtt < 1:2504981/58‑1 (MQ=255) aCAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTctac > 1:7269270/1‑46 (MQ=255) aGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTcta > 1:2472497/1‑43 (MQ=255) tttCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACt > 1:583574/2‑71 (MQ=255) ccTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTcc < 1:6347875/70‑1 (MQ=255) ccTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCg > 1:4788266/1‑71 (MQ=255) tctTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCg < 1:924962/69‑1 (MQ=255) tctTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTAGTCAAAAACCTCAACTCCGtt > 1:2173769/1‑71 (MQ=255) ctTCGGCCAAATCGTTATCACTGGGTTCCAATTcta < 1:5845500/36‑1 (MQ=255) ctTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCttt < 1:3891901/47‑1 (MQ=255) ctTCCGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGt > 1:3763560/1‑69 (MQ=255) ttCGGCCAAATCGTTATCACTGGGTTCCAATTcta > 1:4405364/1‑35 (MQ=255) ttCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaaa > 1:3360252/1‑54 (MQ=255) tCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTtct > 1:4562024/1‑70 (MQ=255) cGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTc > 1:4814429/1‑46 (MQ=255) cGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTtc < 1:6661887/68‑1 (MQ=255) ccAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACt < 1:3637278/59‑1 (MQ=255) cAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCtcatca > 1:5361987/1‑70 (MQ=255) aaTCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAAt > 1:6338546/1‑71 (MQ=255) aTCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTTGTCaaa < 1:11846/45‑1 (MQ=255) aTCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTtctc > 1:2086484/1‑63 (MQ=255) tCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAAcc > 1:6899368/1‑48 (MQ=255) tCGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCaa > 1:1804309/1‑52 (MQ=255) cGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCg > 1:926462/1‑38 (MQ=255) cGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCg > 1:2098324/1‑38 (MQ=255) cGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCg > 1:4953469/1‑38 (MQ=255) cGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCg > 1:4328797/1‑38 (MQ=255) cGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCg > 1:6188801/1‑38 (MQ=255) cGTTATCACTGGGTTCCAATTCTACTAAGGCCTTTTCg > 1:5807845/1‑38 (MQ=255) cGTTATCACTGGGTTCCAAATCTACTAAGGCCTTTTCg > 1:7061024/1‑38 (MQ=255) tATCACTGGGTTCCAATTCTACTAAGGCCTTTTCg < 1:3863174/35‑1 (MQ=255) tATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaaaa > 1:2164774/1‑41 (MQ=255) tATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaaaa > 1:1152905/1‑41 (MQ=255) tATCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaaaa > 1:5931401/1‑41 (MQ=255) aTCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCa < 1:402055/70‑1 (MQ=255) tCACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCAt < 1:6032709/70‑1 (MQ=255) cACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaa > 1:1328935/1‑36 (MQ=255) cACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaa > 1:610324/1‑36 (MQ=255) cACTGGGTTCCAATTCTACTAAGGCCTTTTCGTCaa > 1:2531377/1‑36 (MQ=255) aCTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCt < 1:3207015/70‑1 (MQ=255) cTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTc < 1:6549737/71‑1 (MQ=255) cTGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTc < 1:3439277/71‑1 (MQ=255) tGGGTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCaaa < 1:3793199/58‑1 (MQ=255) ggTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCaa > 1:5042871/1‑40 (MQ=255) ggTTCCAATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCa < 1:7471427/69‑1 (MQ=255) | CAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCA > AP009048/2866043‑2866172 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |