| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 4,156,907 | C→A | 6.8% | intergenic (‑73/+128) | PP_3659 ← / ← PP_3660 | transcriptional regulator, AraC family/LysR family transcriptional regulator |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,156,907 | 0 | C | A | 6.8% | 183.5 / 2.2 | 59 | intergenic (‑73/+128) | PP_3659/PP_3660 | transcriptional regulator, AraC family/LysR family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (26/29); new base A (2/2); total (28/31) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.19e-01 | |||||||||||
ACGTAGTTCTGCTCCTTGAAGTGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACAGTCAACCCACCTTTTGC > NC_002947/4156760‑4157050 | aCGTAGTTCTGCTCCTTGAAGTGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATAccc > 2:1017079/1‑150 (MQ=255) gTAGTTCTGCTCCTTGAAGTGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTa > 1:346464/1‑150 (MQ=255) cTCCTTGAAGTGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGaa < 2:1568535/150‑1 (MQ=255) ccTTGAAGTGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGc > 1:751814/1‑150 (MQ=255) cTTGAAGTGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGcc > 2:337795/1‑150 (MQ=255) cTTGAAGTGAGTCCCGCACGAGACTGATCGCCCTGCTCAATCTGTCCGCACAGAACTCCATCTGGGGCGCGGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGACGATACATATAGCCAATACCCTATGGTCAGAAgag > 1:823437/1‑148 (MQ=255) tGAAGTGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGccac < 1:419723/150‑1 (MQ=255) tGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAgg < 2:346464/150‑1 (MQ=255) tGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAgg < 2:297366/150‑1 (MQ=255) cGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGAt > 1:191060/1‑150 (MQ=255) gCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGAtt > 1:1167866/1‑150 (MQ=255) cACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCTGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTg < 1:484209/150‑1 (MQ=255) cACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTg < 1:1017079/150‑1 (MQ=255) cACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTg < 2:633542/150‑1 (MQ=255) ggAGGCTGATGGTCGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGt < 2:138463/149‑1 (MQ=255) tGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCaa < 1:1839556/150‑1 (MQ=255) gATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAAc < 2:1167866/150‑1 (MQ=255) gtgCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTggggg > 2:578178/1‑150 (MQ=255) gggCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGa < 2:234886/149‑1 (MQ=255) gggCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAAGACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGa > 1:234886/1‑149 (MQ=255) gCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATAc > 2:882479/1‑150 (MQ=255) aaaaCTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCa > 1:1122238/1‑150 (MQ=255) aaaCTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCAc < 1:882479/150‑1 (MQ=255) tCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACaaacagc > 1:1088154/1‑99 (MQ=255) tCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGc < 2:1088154/103‑1 (MQ=255) tGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGTAGTCCAGATACAGCACCGTCTTCaaa < 1:278441/150‑1 (MQ=255) gCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGt < 1:649382/150‑1 (MQ=255) tAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATAACCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGAt > 1:1553955/1‑119 (MQ=255) tAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATAACCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGAt < 2:1553955/119‑1 (MQ=255) tCGATACCGAAGGCTGCCTTGCAAATCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCtgt < 2:1899860/150‑1 (MQ=255) tCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCtgt > 1:188384/1‑150 (MQ=255) tCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATAACCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAatat < 1:1033613/135‑1 (MQ=255) tCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATAACCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAatat > 2:1033613/1‑135 (MQ=255) cGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCtgtg < 2:191060/150‑1 (MQ=255) aTACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGc > 2:1396110/1‑150 (MQ=255) cGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGa > 2:1134224/1‑107 (MQ=255) cGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGa < 1:1134224/107‑1 (MQ=255) cGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTACAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGc > 1:1582623/1‑150 (MQ=255) gAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCa > 1:249002/1‑150 (MQ=255) ggCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGt > 2:1353237/1‑114 (MQ=255) ggCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGt < 1:1353237/114‑1 (MQ=255) cTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGa > 2:1222688/1‑150 (MQ=255) gCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAaga > 1:849394/1‑150 (MQ=255) gCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGCCAGTTCAGATTGAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAaga < 2:751814/150‑1 (MQ=255) aaaGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTACCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCCGGCACGCCCGCGAagaaa > 2:156680/1‑148 (MQ=255) aTACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCt < 1:1037921/53‑1 (MQ=255) aTACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCt > 2:1037921/1‑53 (MQ=255) cacGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACa < 2:249002/150‑1 (MQ=255) cGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACAGt < 1:1222688/150‑1 (MQ=255) tgaaccATTTAGCCGATCCCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACAGTCaa < 2:527688/146‑1 (MQ=255) cGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACAGTCaa < 1:1275495/150‑1 (MQ=255) atatAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCtgt < 1:27244/98‑1 (MQ=255) atatAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCtgt > 2:27244/1‑98 (MQ=255) atatAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGaa > 1:346080/1‑127 (MQ=255) atatAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGaa < 2:346080/127‑1 (MQ=255) aGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTAc < 1:33928/101‑1 (MQ=255) aGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTAc > 2:33928/1‑101 (MQ=255) ccAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACAGTCAACCCACCTTTTGc > 1:888127/1‑150 (MQ=255) aaTACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACa > 2:409284/1‑131 (MQ=255) aaTACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACa < 1:409284/131‑1 (MQ=255) | ACGTAGTTCTGCTCCTTGAAGTGCGTCCCGCACGAGGCTGATCGACGTGGTGCCTTTGTGGGCAGAAAACTCCATCTGGGGCTCCGTTGCTAACTCGATACCGAAGGCTGCCTTGCAAAGCATACACGCCGATCCATATAGCCAATACCCTATGTTCAGAAGCCACCAAGGGCTGGATTGGTCTCCAACTTCCTGGGGGCAGTCCAGATACAGCACCGTCTTCAAATATCTGTGCTGTACCTGTGGCGGGCACGCCCGCGAAGAGACCAGTACAGTCAACCCACCTTTTGC > NC_002947/4156760‑4157050 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |