| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 353,289 | T→C | 10.7% | intergenic (+124/+213) | codA → / ← cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 353,289 | 0 | T | C | 10.7% | 109.9 / 4.9 | 56 | intergenic (+124/+213) | codA/cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| Reads supporting (aligned to +/- strand): ref base T (16/31); new base C (5/2); total (23/33) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 9.56e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.60e-01 | |||||||||||
AGAAGCCATCGATTACAAACGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCA > CP009273/353141‑353436 | aGAAGCCATCGATTACAAACGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGAt < 1:39445/149‑1 (MQ=255) aaGCCATCGATTACAAACGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCTGATGCGGCGTGAACGCCGTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGCCAGCCGCTGATCt < 2:641556/149‑1 (MQ=255) ccATCGATTACAAACGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGACCtgtg > 2:540539/1‑149 (MQ=255) ccATCGATTACAAACGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCtgtg > 2:319794/1‑149 (MQ=255) ttACAAACGGTGAACGACTGGGTTACAGCGAGCTGAGTTTATGCCGGATGCGGCGTGAACGCCGTATCCGGCCTACGTAGAGCACTGACCTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCgg < 1:75346/149‑1 (MQ=255) taaCAAACCTTGAACCACCGGGTTACACCGAGCTTAGTTTATGCCCGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCgg < 2:258006/147‑1 (MQ=17) aaaCGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCtgc > 2:706077/1‑147 (MQ=255) aaaCGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGACCTGTGTCAGCGGCTAc > 2:189176/1‑149 (MQ=255) aaaCGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTAc > 1:150428/1‑149 (MQ=255) gcttGAACGGCGGGGTTACAGCGGGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGt < 1:166278/147‑1 (MQ=11) cGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGt < 1:10765/149‑1 (MQ=255) tGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAGGCGTAGCGCATCAGGCAATGCCCGCCGCTGATCTGTGTCAGCGGCTACCGTgct > 2:351732/1‑147 (MQ=255) aaCGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGattc < 1:420916/149‑1 (MQ=255) cGACTGGGTTACAGCGGGCTTAGTTTAGGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGattcat < 1:364550/149‑1 (MQ=255) cGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGGTCTGTGTCAGCGGCTACCGTGcttcat > 2:80660/1‑149 (MQ=255) tGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTccc < 2:474293/149‑1 (MQ=255) ggTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCACGc > 2:185372/1‑149 (MQ=255) ggTTACAGCGAGCTTAGTATATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGc < 1:137267/149‑1 (MQ=255) gTTACTGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGcc < 2:246543/149‑1 (MQ=255) gTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGGGCACTGGACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGCTCTGTGTCAGCGGCTACCGTGATTCGTTTCGGcc > 1:222534/1‑149 (MQ=14) accGAGCTTAGTTTAGGCCGGAGGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCcaacaa < 1:708793/147‑1 (MQ=255) cGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCCGCGTCAGCCGCTACCGTGATTCATTCCCGCCAACAAcc > 2:162192/1‑149 (MQ=255) accTTAGTTAATTCCCGCTGCGGCCTGACCGCCTTATCCGCCCTACGTAGACCACGGAACCCGTAGGCCTGATAAGCGTACCGCATCAGGCAATTCCATCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACcgc < 1:785360/147‑1 (MQ=14) ttAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCGGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACGCCGCa > 1:155778/1‑149 (MQ=255) ttAGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATGCCCGCCAACAACCGCGCa < 1:26937/149‑1 (MQ=255) gctggtGCGGCGTGAGCGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAAc < 1:646572/144‑1 (MQ=255) tGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGACCTGTGTCAGCGGCTAGCGGGATTCATTTCCGCCACCAACCGCGCATTCCTCCACCGCCAt > 1:173266/1‑149 (MQ=11) tGCGGCGTGAACGCCTTAGCCGGCCTACGTAGAGCACTGAAAACGTAGGCCTGATACGCGTAGCGCATCAGGCAATTCCAGCCGCTGAGCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCTTCCAAAGCCAt > 2:637754/1‑149 (MQ=11) gggcgtttaggCCTTAGCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACAGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCAtgt < 2:627355/139‑1 (MQ=14) ggcgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCCTGACTCATGCCCGCCAACAACCGCGCATTCATCCAACGCCAtgtg > 2:162862/1‑149 (MQ=255) gCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGc < 2:731535/149‑1 (MQ=255) ccTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCAttta > 1:157944/1‑123 (MQ=14) ccTACGGAGCGCACTGAACTCGTGAGCCTGGTAACCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCgg < 1:587302/149‑1 (MQ=14) cTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCGTCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGc > 1:727634/1‑149 (MQ=255) cGTAGAGCACTGAACCCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGt < 2:798988/149‑1 (MQ=255) cGTAAAGCTGTGAACACAAAGACCTAATAACCGTAGCGCACCAGGCAATTCCAGCGGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCATCCACCAACCGCGCATTCCTCAAAAAAAAAAAAAAAAAATGCCTTCGCAGCGGCTGt < 1:413670/149‑1 (MQ=9) tAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCt < 1:653146/149‑1 (MQ=255) gagCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGc < 1:706077/149‑1 (MQ=255) gagCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGc < 2:350012/149‑1 (MQ=255) agCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGcc > 1:556872/1‑149 (MQ=255) cACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCGGGCTGCCAg > 1:533785/1‑149 (MQ=255) cACTGAACGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATGCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAg < 1:464687/149‑1 (MQ=255) aCTCGTAGGCGTGAGAAGTGTAGCGCAGCAGGCAATCCCGGCCGCTCATCTGTGTCGGCGGCTACCGTCGTTCATCCCCGCCAACATCCGCGCATTCCTCCAACGCCATTTGCAAAAATTCCTTCGCAGCGGCTGTCTGTCAGCGGTAg < 1:81801/149‑1 (MQ=255) aCTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCATCAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAg < 2:60815/149‑1 (MQ=255) tCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCGGCTGATCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACGGCCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCCGCTGTGGtt > 1:473780/1‑149 (MQ=11) aGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTTCCGc > 1:671807/1‑75 (MQ=21) ggCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGc < 2:155778/149‑1 (MQ=255) aTAAGCGTAGCGCATCAGGCAATTCCCGCAGTTGAACTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATg > 2:210902/1‑149 (MQ=17) gCGTAGCGCAGCAGGCAATTCCGGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATgcggc < 2:663621/149‑1 (MQ=255) cATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGc < 2:58505/149‑1 (MQ=255) gCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGCCGGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATc > 2:303538/1‑149 (MQ=255) ttCCGGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCACTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGc < 1:778323/149‑1 (MQ=255) ttCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGc < 2:104093/149‑1 (MQ=255) ttCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGc < 2:668757/149‑1 (MQ=255) tCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGcc < 2:524696/149‑1 (MQ=255) tGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTATTTTATGCCCAGTTCGGCGTGGACGCGTTTTCGGGCCTAGGttgtg > 1:34329/1‑145 (MQ=17) aTCTGTGGCAGCGGCTACCGCGACTCATACCCGCCAATATCCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCa < 2:20206/149‑1 (MQ=25) | AGAAGCCATCGATTACAAACGTTGAACGACTGGGTTACAGCGAGCTTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGCTACCGTGATTCATTCCCGCCAACAACCGCGCATTCCTCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCA > CP009273/353141‑353436 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |