| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 6,128,482 | A→T | 6.9% | intergenic (‑542/‑380) | PP_5375 ← / → PP_5376 | LysR family transcriptional regulator/hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 6,128,482 | 0 | A | T | 6.9% | 167.2 / 5.2 | 58 | intergenic (‑542/‑380) | PP_5375/PP_5376 | LysR family transcriptional regulator/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (24/30); new base T (2/2); total (26/32) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.24e-01 | |||||||||||
CAGACCAAGGGGGAGACGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTAGAGAATTAAAACTGTCGCCGCCAGTAATGACGCGGCTTTGCGG > NC_002947/6128336‑6128628 | cAGACCAAGGGGGAGACGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAAc > 1:1005748/1‑150 (MQ=255)cAGACCAAGGGGGAGACGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAAc > 1:1048987/1‑150 (MQ=255) gACCAAGGGGGAGACGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTATAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTg > 1:661445/1‑150 (MQ=255) gggggAGACGGGACGCGAGGGAGACGGTTGAAACCATCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAAATTCAGCAGCGCGTC‑AATGTCATGCTATTAACGAAACCAAGTTGTTAATTTAGAGAATTAAAACTCTCGCaa > 1:603220/1‑150 (MQ=255) ggggAGACGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAAc < 1:435056/150‑1 (MQ=255) gagaCGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAg < 1:67052/150‑1 (MQ=255) gagaCGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAg < 2:652353/150‑1 (MQ=255) gaCGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGc < 1:1524132/150‑1 (MQ=255) gACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCAt > 2:770318/1‑150 (MQ=255) gAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCAt < 2:365134/150‑1 (MQ=255) aGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCCCAtgaaatg < 2:107685/150‑7 (MQ=255) ggAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGc < 1:540253/137‑1 (MQ=255) ggAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGc > 2:540253/1‑137 (MQ=255) ggAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATggg < 2:1018400/150‑1 (MQ=255) gagaCGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATgggg < 1:910800/150‑1 (MQ=255) gAAACCGTCCGATGAAGGGAAACGAGCTCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGTTTTTATAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGc < 2:1635277/150‑1 (MQ=255) gTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCtt < 1:1399690/150‑1 (MQ=255) tCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTg < 1:45373/150‑1 (MQ=255) cGATGGAGGTAAACGAGCGCTTCCCCTCTACCCGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCCTGga < 2:603220/150‑1 (MQ=255) gggAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATg > 1:1402860/1‑150 (MQ=255) aCGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCaaaa < 2:1402860/150‑1 (MQ=255) cTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAACTGCAAAACTGTCGc > 2:9450/1‑150 (MQ=255) ctACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCAc < 1:770318/150‑1 (MQ=255) gCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATggg > 1:163438/1‑98 (MQ=255) gCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATggg < 2:163438/98‑1 (MQ=255) gACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATAcc > 2:447493/1‑150 (MQ=255) aGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCt < 2:320489/150‑1 (MQ=255) gTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATCTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCATGCGGACGCTCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCtt > 1:1178184/1‑150 (MQ=255) ttttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGc > 1:1287082/1‑93 (MQ=255) ttttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGc < 2:1287082/93‑1 (MQ=255) ttttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGgaga > 2:1174052/1‑112 (MQ=255) ttttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGgaga < 1:1174052/112‑1 (MQ=255) ttttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTc > 1:1017283/1‑150 (MQ=255) tttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAg > 2:882885/1‑75 (MQ=255) tttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAg < 1:882885/75‑1 (MQ=255) tttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCaaa > 1:1138539/1‑131 (MQ=255) tttAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCaaa < 2:1138539/131‑1 (MQ=255) tAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAgg < 1:1628859/150‑1 (MQ=255) acTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTaga < 2:1048987/150‑1 (MQ=255) cTGTTTTAAT‑TCAACGAAACCAAGTTGTGGATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCa > 1:14488/1‑65 (MQ=255) cTGTTTTAAT‑TCAACGAAACCAAGTTGTGGATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCa < 2:14488/65‑1 (MQ=255) aT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTATAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTc < 2:1188695/102‑1 (MQ=255) aT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTATAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTc < 2:1188701/102‑1 (MQ=255) aT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTATAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTc > 1:1188695/1‑102 (MQ=255) aT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTATAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTc > 1:1188701/1‑102 (MQ=255) tCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTa > 1:347362/1‑137 (MQ=255) tCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTa < 2:347362/137‑1 (MQ=255) aaCGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATAcc < 1:1360113/116‑1 (MQ=255) aaCGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATAcc > 2:1360113/1‑116 (MQ=255) aCCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTAGAGAATTAAAACTGTcgccgc < 1:153901/150‑1 (MQ=255) cAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTAGAGAATTAAAACTGTCGCCGCCa > 1:323142/1‑150 (MQ=255) cAAGTTCTGAATTCAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTAGAGAATTAAAACTGTCGCCGCCa > 2:100962/1‑150 (MQ=255) gtgAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTAGAGAATTAAAACTGTCGCCGCCAGTAATg > 2:599801/1‑150 (MQ=255) gagaATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCAc > 1:457809/1‑85 (MQ=255) gagaATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCAc < 2:457809/85‑1 (MQ=255) agaATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCACTTGGAGAAAATGTAAAACAGTTACAAAAGTTCCCAATACCGCTTCAGTCTATCTTGGTAGAGTAGTAAAACTTTCGCCGCCAGTAATGACGCGGCttt < 2:1005748/150‑1 (MQ=255) aaTTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTAGAGAATTAAAACTGTCGCCGCCAGTAATGACGCGGCTTTGc < 2:1017283/150‑1 (MQ=255) ttAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTAGAGAATTAAAACTGTCGCCGCCAGTAATGACGCGGCTTTGCgg > 2:1427603/1‑150 (MQ=255) | CAGACCAAGGGGGAGACGGGACGCGAGGGAGACGGTTGAAACCGTCCGATGAAGGGAAACGAGCGCTTCCCCTCTACCGGCGACAGTTTTAATTGTTCGACGACTGTTTTAAT‑TCAACGAAACCAAGTTGTGAATTTAGAGAATTAAAACTGTCGCAACGAGGCCTCATTTCATGGGGCCTGCGGGCTCCCTTGGAGAAAATGCAAAACTGTCGCAAAAGCACGAAATACCGCTTCAGGCGATCGCTTTAGAGAATTAAAACTGTCGCCGCCAGTAATGACGCGGCTTTGCGG > NC_002947/6128336‑6128628 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |