| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 3,766,151 | G→T | 10.2% | R161L (CGA→CTA) ‡ | PP_5599 → | LysR family transcriptional regulator |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 3,766,151 | 0 | G | T | 10.2% | 179.6 / 7.3 | 58 | R161L (CGA→CTA) ‡ | PP_5599 | LysR family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (28/24); new base T (2/4); total (30/28) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.15e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.52e-01 | |||||||||||
AAGCATTGCCCCGCAACTGAGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACTTGAATGACAATGACCTG > NC_002947/3766005‑3766296 | aaGCATTGCCCCGCAACTGAGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCga < 5:326742/148‑1 (MQ=255)aaGCATTGCCCCGCAACTGAGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCga < 2:304837/148‑1 (MQ=255) ccccGCAACTGAGGCTACGCATCAGGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCTCGAAGAAcct < 7:220593/149‑2 (MQ=255) cAACTGAGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCTCGAAGAAcctgtata < 8:1072/149‑7 (MQ=255) cTGAGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCt > 2:256935/1‑149 (MQ=255) aGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGagaa > 5:284198/1‑132 (MQ=255) aGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGagaa < 6:284198/132‑1 (MQ=255) aGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCtttt < 6:232411/149‑1 (MQ=255) gCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGa > 2:48703/1‑149 (MQ=255) cTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGAc < 1:193603/149‑1 (MQ=255) gCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCa > 8:7211/1‑147 (MQ=255) cACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGAcc > 7:306184/1‑149 (MQ=255) ccAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCTCGAAGAAcct > 2:233424/1‑122 (MQ=255) ccAGGGGACTCGCGCAGTATTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCTCGAAGAAcct < 1:233424/123‑2 (MQ=255) cAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGtt < 1:256935/149‑1 (MQ=255) cTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAgc < 7:102745/149‑1 (MQ=255) gTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATc < 2:314223/149‑1 (MQ=255) gTCTTTACGAACAAGTAGCCTGCGGAGAGCTAGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATc > 1:33158/1‑149 (MQ=255) aCGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGATCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTc < 1:231554/148‑1 (MQ=255) aCGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTc < 3:155932/148‑1 (MQ=255) gAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCTCGAAGAAcctgt > 8:341938/1‑98 (MQ=255) gAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCTCGAAGAAcctgt < 7:341938/101‑4 (MQ=255) gAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTcgac > 2:257216/1‑149 (MQ=255) gAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGACCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTcgac > 1:86032/1‑149 (MQ=255) gTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCt < 7:7211/149‑1 (MQ=255) ccTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGt < 8:306184/149‑1 (MQ=255) cTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCaaa > 5:79391/1‑106 (MQ=255) cTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCaaa < 6:79391/106‑1 (MQ=255) ggAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGaaa > 8:90357/1‑149 (MQ=255) agagCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAAcc < 2:33158/149‑1 (MQ=255) aTGCGGTAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGACAAAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCg < 1:257216/149‑1 (MQ=255) cGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGata < 2:40957/148‑1 (MQ=255) tCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTca > 3:310489/1‑149 (MQ=255) tGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGaaa > 1:165982/1‑127 (MQ=255) tGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGaaa < 2:165982/127‑1 (MQ=255) tATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGcc > 2:44462/1‑149 (MQ=255) tCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTggg < 1:44462/149‑1 (MQ=255) cGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTgggg > 1:145096/1‑148 (MQ=255) ttCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTggg > 5:81068/1‑147 (MQ=255) cccAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGccc < 2:86032/148‑1 (MQ=255) ccAAAAGCATTCGTATACCGGTTCTTCGAGAAGAACCACTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGAATGcc > 6:313408/1‑146 (MQ=255) ccAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAACCCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCcag > 8:352241/1‑149 (MQ=255) ccAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCcag > 5:250363/1‑149 (MQ=255) ccAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCcag < 1:48703/149‑1 (MQ=255) ccAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCcag > 3:128009/1‑149 (MQ=255) ccAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCcag > 7:206099/1‑149 (MQ=255) ccAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGAATCGATATGACTCACATGCCTGGGGTGGGCAGATTGcc > 3:353369/1‑146 (MQ=255) aaaaGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGaaa < 3:278580/101‑1 (MQ=255) aaaaGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGaaa > 4:278580/1‑101 (MQ=255) aTTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACtt > 3:64221/1‑149 (MQ=255) aTTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACtt < 4:310489/149‑1 (MQ=255) aTTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGAATCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACtt < 4:353369/149‑1 (MQ=255) gTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACTTGaa < 6:81068/148‑1 (MQ=255) ataCAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACTTGaatga > 2:62740/1‑149 (MQ=255) aCAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACTTGaatgac > 4:266079/1‑148 (MQ=255) aCAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGAGACATCCGCTAGACGATTATTGGTCGAAACCTGATTCGATATGACTCAAATGCCTGGGGTGCGCAGATTGCACAGCAGTACTTGaattac > 8:265773/1‑148 (MQ=255) aGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACTTGaa > 3:17585/1‑142 (MQ=255) aGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACTTGaa < 4:17585/142‑1 (MQ=255) gTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACTTGaatgacaatga > 3:50012/1‑149 (MQ=255) cGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTCAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACCTGAATGACAATGACCTg < 3:332967/147‑1 (MQ=255) | AAGCATTGCCCCGCAACTGAGGCTACGCATCACGCCAGGGGACTCGCGCAGTCTTTACGAACAAGTAGCCTGCGGAGAGCTCGATGCGGGAGTCATGGTATGTCCGCCCTTCAGCGTCCCCAAAAGCATTCGTATACAGGTTCTTCGAGAAGAACCCCTGATGCTTTTGACCAAAGACCCCGTTGAC‑AAGCGCGACATCCGCTCGACGATTCTTGGTCGAAACCTGATTCGATATGACTCACATGCCTGGGGTGGGCAGATTGCCCAGCAGTACTTGAATGACAATGACCTG > NC_002947/3766005‑3766296 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |