| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | BS168_reference_genome | 3,644,663 | C→T | 7.0% | D212N (GAC→AAC) | degU ← | two‑component response regulator |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | BS168_reference_genome | 3,644,663 | 0 | C | T | 7.0% | 182.0 / 2.9 | 57 | D212N (GAC→AAC) | degU | two‑component response regulator |
| Reads supporting (aligned to +/- strand): ref base C (24/29); new base T (2/2); total (26/31) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.67e-01 | |||||||||||
ACTCTATTGTAAGGGAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTGCAGCACTTCACATTCCCGCCTAGTTA > BS168_reference_genome/3644539‑3644800 | aCTCTATTGTAAGGGAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑cattcatt < 2:30583/138‑1 (MQ=255) tATTGTAAGGGAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑CAATAAttttttt > 2:67912/1‑138 (MQ=255) ttGTAAGGGAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑GATTGAtttttttt > 2:43310/1‑136 (MQ=255) aGGGAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCTTTTCTACCCAGCCATTTTTAATGGCGCCCACAACGGCTTGCGTCCGGTCGTGGA‑GAGTGATTTTTTGGAAtata > 2:266892/1‑139 (MQ=255) aGGGAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑CATTAATTTTTTTTTAAat > 5:58674/1‑138 (MQ=255) aGGGAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑CAATGATTTTTTTTTAAata > 2:232510/1‑139 (MQ=255) gAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTTGTTTA‑CATTCATTTTTTGTAAAATATTg > 6:29405/1‑139 (MQ=255) gAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTA‑AAATCATTTTTTTTTAAatatat > 6:308577/1‑137 (MQ=255) gAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGGT‑CATTGATTTTTTTTTAAATAttt > 4:219400/1‑138 (MQ=255) gAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGGCCGGTTGTTTA‑CATTCATTTTTTGTAAAATATTg > 6:33634/1‑139 (MQ=255) gAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCT‑CCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑AATTAATTTTTTTTTAAATAtttg > 8:218296/1‑137 (MQ=255) aaCGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTTCt > 6:66804/1‑139 (MQ=255) aaCGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑CAATAATTTTTTTTTAAATAtttca > 6:83654/1‑136 (MQ=255) ggCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAATCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑c < 5:135462/139‑1 (MQ=255) ccTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTA‑CCTTGTTTTTTTTTTAAATATTTATGT‑C‑A‑TGGt > 1:26081/1‑139 (MQ=255) aaaGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAAc < 1:232510/139‑1 (MQ=255) acagaGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTtct < 1:208109/135‑1 (MQ=255) ccTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTtct < 1:148303/138‑1 (MQ=255) ccTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTtct < 1:67912/138‑1 (MQ=255) ccTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTtct < 1:43310/138‑1 (MQ=255) cTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTTGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCa < 5:33634/139‑1 (MQ=255) cTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTTGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCa < 5:29405/139‑1 (MQ=255) cTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCa < 5:308577/139‑1 (MQ=255) gTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTTCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTg < 2:182212/139‑1 (MQ=255) aaaCGCAAGTCTACTATTATACTAAAGCCTTTCTACCCAGCCATTTTTAAAGGCGACCACAACGGCGTTCGGCCGGGCGTTTA‑AAATCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATa < 1:50783/139‑1 (MQ=255) aGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATaaa < 7:271066/139‑1 (MQ=255) aGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑GATTCATTTTTTTTAAAAAATTTGTGG‑C‑A‑AGGTTTTTTACGGTTTTTTGACGGATAAACaggg > 2:208109/1‑136 (MQ=255) gTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTT‑CATTAATTTTTTTTTAAATATTTGTTA‑C‑A‑TGGTTTTTTAAGGGTTTGTTACAGATaaaaaaata > 6:251283/1‑136 (MQ=255) gTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGa < 6:97118/139‑1 (MQ=255) gTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGa < 4:39903/139‑1 (MQ=255) gTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTA‑CATTAAATTTTTTTAAAATATTTGGGT‑CAA‑TGTTTTTTAACGG‑TTTGTCACAGATAAAAAATGa > 2:243488/1‑139 (MQ=255) cTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCAc < 5:83654/139‑1 (MQ=255) cTATTATACTATCTAATTTCTAGCCAGCGATTTTTTATGGCGACCACAACGGCTTGGGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTAAc < 7:105579/139‑1 (MQ=255) taCTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGGT‑GATTCATTTTTTTTTAAATATTGGGGACC‑A‑GGGTTTTTAA‑GGTTTTGTGCCTGTTTAACCATGTTTCAcccaaaa > 4:64700/1‑134 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTT‑CATTAATTTTTTGTATAATATTTGTGA‑C‑A‑TGGTTTTTTAAGGTTTTGTCACTGATAAAAAATTTTTCACCAATTCCGCgg > 4:209704/1‑139 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACcgcg < 6:84272/138‑1 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑CATTAATTTTTTTTTTAATATTTGTGA‑C‑ATTGGTTTTTAA‑GGTTTTATAACTTATAAAAAAAAATTCACCAATACCGCgg > 5:65093/1‑139 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑CATTAATTTTTTTTTAAATATTTGTGA‑C‑A‑TTGTTTTTAAAGGGTTTGTCACGGATAAAAAATGATTGACCAAAAcaccgg > 8:102342/1‑134 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑CATTAATTTTTTTTTAAATATTTATGA‑C‑A‑ATGTTTTTTAAGGTTTTATAAATGATAAACAATTATTAACCAAAACCGCgg > 8:230816/1‑139 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTT‑CAATCATTTTTTGTAAAATATTTCTGG‑C‑A‑TTGTTTTTTACGGTTTTATCACTGATAAAAAATTATTAACCAATAAcgccg > 7:20568/1‑137 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGTA‑CATTAAATTTTTTTAAAAAATTGCTGA‑C‑A‑TTGGTTTTAACGGGTTTATGACTGATAAAAAAAGATTACCCAATTCCCCgg > 2:10863/1‑139 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTGGT‑CATTTAATTTTTTTTAAATATTGGTGG‑C‑A‑TGGGTTTTTAGGGTTTTGTGACTGTGAAACAAAGTTTGCCAAATACCgggg > 5:271206/1‑139 (MQ=255) tctcATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGGCCGGTCGTGTA‑CAGTCGTTTTTTGTAAAATATTGGGGC‑C‑G‑TGGTGTGTGAGGGTTTTGGCACTGGTAAAGGGTGGTTGAGCAAGACCGCgg > 4:244164/1‑139 (MQ=255) aCCCAGCCATTTTTAATGGCGACCACACCGGCTTGCGTCCGGTCGTGGAGCTTGAATTTTTTTTAAAAATTTGGT‑C‑C‑A‑TGGGTTTTAACGGGGTTGTACCGGTTTAAAAAAGATTGACCAATAACCCGGGTGCTTTTTc > 2:194372/1‑139 (MQ=255) aTTTTTTATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCa < 1:267439/139‑1 (MQ=255) aTTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCa < 1:266892/139‑1 (MQ=255) aTTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCa < 4:309566/139‑1 (MQ=255) aTTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGACAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCa < 3:13478/139‑1 (MQ=255) ttAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGc < 2:280262/138‑1 (MQ=255) ttAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGc < 5:1279/138‑1 (MQ=255) aCCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTgcagca < 5:251283/139‑1 (MQ=255) aaCTGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTGCAGCACTTca < 3:36/139‑1 (MQ=255) gTCCGGTCGTTTA‑CATTGATTTTTTGTATAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTGCAGCACTTCACATTCCCGcc < 1:157386/139‑1 (MQ=255) gTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTGCAGCACTTCACATTCCCGcc < 6:65093/139‑1 (MQ=255) tCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTGCAGCACTTCACATTCCCGCCTAGTTa < 5:66804/139‑1 (MQ=255) tCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTGCAGCACTTCACATTCCCGCCTAGTTa < 6:68296/139‑1 (MQ=255) tCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTGCAGCACTTCACATTCCCGCCTAGTTa < 1:243488/139‑1 (MQ=255) | ACTCTATTGTAAGGGAAACGGCAGCCTAAAAAAAGACCTGCCTAGTAAAAGGCAAGTCTCCTATTATACTATCTCATTTCTACCCAGCCATTTTTAATGGCGACCACAACGGCTTGCGTCCGGTCGTTTA‑CATTCATTTTTTGTAAAATATTGCTGA‑C‑A‑TGGTTTTTAACGGTTTTCTCACTGATAAACAATGATTCACCAATACCGCGGTTGCTTTTTCCGTCTGCAAGCATCTGCAGCACTTCACATTCCCGCCTAGTTA > BS168_reference_genome/3644539‑3644800 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |