| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 1,191,519 | G→A | 6.9% | intergenic (+75/+55) | xcpX → / ← upxB | type II secretion system protein K/phosphatase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,191,519 | 0 | G | A | 6.9% | 170.8 / 2.9 | 58 | intergenic (+75/+55) | xcpX/upxB | type II secretion system protein K/phosphatase |
| Reads supporting (aligned to +/- strand): ref base G (28/26); new base A (2/2); total (30/28) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.38e-01 | |||||||||||
TGCAATGGCATGCCCGTGTACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGCCCGCGGCCGTACGGTAGCCCCAGCCGGCG > NC_002947/1191377‑1191656 | tgCAATGGCATGCCCGTGTACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGcc < 7:136405/149‑1 (MQ=255) aTGGCATGCCCGTGTACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCcgc > 7:260129/1‑148 (MQ=255) tGGCATGCCCGTGTACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCcgcg > 1:123209/1‑148 (MQ=255) gCATGCCCGTGTACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCcgcg > 7:219375/1‑146 (MQ=255) gCCCGCGTACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGAAAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGc < 4:224147/149‑1 (MQ=255) cGTGTACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCgg > 7:15413/1‑149 (MQ=255) tACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTAca < 3:118183/149‑1 (MQ=255) gcgcAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCACTGGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTAcagc > 1:251553/1‑147 (MQ=255) acaaGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCaaaa < 7:82822/149‑1 (MQ=255) cGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCg < 4:286551/148‑1 (MQ=255) tAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCa > 1:33453/1‑149 (MQ=255) tAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCa > 2:327521/1‑149 (MQ=255) aGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCAc > 1:169138/1‑149 (MQ=255) gggAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCTAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGa < 8:260129/149‑1 (MQ=255) gAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGc > 4:57236/1‑110 (MQ=255) gAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGc < 3:57236/110‑1 (MQ=255) cGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGATCCCCCCGTAGGAG‑CGGGCTTGCCCGCGTAGAGGCCGGTACAGCCAGCAATAGTTGGCTGCCCGGCACGGGATCAAAc > 6:271555/1‑149 (MQ=255) cGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAAc < 1:120409/149‑1 (MQ=255) cGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAAc < 2:271829/149‑1 (MQ=255) gATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCTTAGGAGCCTTGCTTGCCCGCTAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAAc < 1:94624/149‑1 (MQ=255) gCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTcc < 8:219375/149‑1 (MQ=255) ccTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTccc < 2:169138/149‑1 (MQ=255) gTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGGG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGAtc > 6:165180/1‑149 (MQ=255) gTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGCTCTcccc > 8:275057/1‑149 (MQ=255) gTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTcccc < 2:123209/149‑1 (MQ=255) gTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTccc > 4:315033/1‑148 (MQ=255) aC‑CGACCTCTTCGCGGGCAAATCCGCCCCTAGGCTGGGTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATc < 8:257985/126‑1 (MQ=255) aC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCccacca > 5:248248/1‑149 (MQ=255) aC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCccacca > 3:290232/1‑149 (MQ=255) aC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCccacc < 1:327521/148‑1 (MQ=255) aC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTAGGCTGACCGGCACGGGATc > 7:257985/1‑126 (MQ=255) ggcctcttcgcgggcaagcccgctcctacggggggttcactggtttcagaaccagCGTAGGGG‑CGGATTTGCCCGCTAAGAGGTCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATc < 7:182068‑M1/93‑1 (MQ=255) cctcttcgcgggcaagcccgctcctacggggggttcactggtttcagaaccagCGTAGGGG‑CGGATTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTccc > 4:166025‑M1/54‑139 (MQ=255) cctcttcgcgggcaagcccgctcctacggggggttcactggtttcagaaccagCGTAGGGG‑CGGATTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTccc < 3:166025‑M1/86‑1 (MQ=255) tctTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTc < 5:2217/127‑1 (MQ=255) tctTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTc > 6:2217/1‑127 (MQ=255) aGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCt < 3:315033/148‑1 (MQ=255) aGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGAGAACCCCCCGTAGGAC‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGATGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGc < 5:271555/147‑1 (MQ=255) gCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTg > 1:320509/1‑148 (MQ=255) gCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTg < 2:320509/148‑1 (MQ=255) aTCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATc > 1:29564/1‑144 (MQ=255) aTCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATc < 2:29564/144‑1 (MQ=255) tCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCAAGCAAAAGTTGGCTGACCGGCACTGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCaccacc > 2:13421/1‑149 (MQ=255) gCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTc > 6:85692/1‑149 (MQ=255) gCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTc > 1:200307/1‑149 (MQ=255) ccTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGaa < 6:248248/149‑1 (MQ=255) ctacggggggttcactggtttcagaaccagCGTAGGGG‑CGGATTTGCCCGCTAAGAGGTCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGaa > 8:182068‑M1/31‑148 (MQ=255) cGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGGG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGc < 5:165180/147‑1 (MQ=255) cTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCGCCACCGTCGAAGCCcgc < 2:251553/149‑1 (MQ=255) gTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGAt < 8:69776/127‑1 (MQ=255) gTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGAt > 1:130343/1‑127 (MQ=255) gTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGAt > 7:69776/1‑127 (MQ=255) tCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGCCCGCGGCCg > 3:69513/1‑149 (MQ=255) cTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGCCCGCGGCCg > 3:159677/1‑148 (MQ=255) cAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGCCCGCGGCCGTACGGTAg > 7:117792/1‑149 (MQ=255) aCCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGCCCGCGGCCGTACGGTAGCCCCAg > 7:91867/1‑149 (MQ=255) aCCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGCCCGCGGCCGTACGGTAGCCCCAg < 4:233658/149‑1 (MQ=255) cGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGCCCGCGGCCGTACGGTAGCCCCAGCCGGCg < 5:85692/149‑1 (MQ=255) | TGCAATGGCATGCCCGTGTACCTGCGCAACAAGTGCGGGTGCGTAGCCGGGAGCCGATAGCCTGGTAACGTTCAC‑CGACCTCTTAGCGGGCAAATCCGCCCCTACGCTGGTTCTGAAACCAGTGAACCCCCCGTAGGAG‑CGGGCTTGCCCGCGAAGAGGCCGGTACAGCCAGCAAAAGTTGGCTGACCGGCACGGGATCAAACGGTCCCGATCTCCCCACCATCAATACGCTGGATCACCACCGTCGAAGCCCGCGGCCGTACGGTAGCCCCAGCCGGCG > NC_002947/1191377‑1191656 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |