| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 1,846,339 | Δ1 bp | 6.9% | coding (588/1377 nt) | pfeS‑II → | histidine kinase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,846,339 | 0 | T | . | 6.9% | 169.4 / 6.9 | 58 | coding (588/1377 nt) | pfeS‑II | histidine kinase |
| Reads supporting (aligned to +/- strand): ref base T (26/28); new base . (2/2); total (28/30) | |||||||||||
| 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 | |||||||||||
ATCCGGGCCAGCACCGCTTGCTGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGTTGCTGCGCGACCTGTCCCACGAAATGCG > NC_002947/1846191‑1846488 | aTCCGGGCCAGCACCGCTTGCTGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATc > 2:50769/1‑150 (MQ=255) cAGCACCGCTTGCTGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCg > 1:339633/1‑150 (MQ=255) gCACCGCTGGCGGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGA‑CAGCTGATCGGc < 1:80130/150‑1 (MQ=255) cccGCTTGCTGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGccc < 2:868525/149‑1 (MQ=255) aCCGCTTGCTGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGA‑CAGCTGATCGGccc < 1:1023370/150‑1 (MQ=255) ccGCTTGCTGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCg > 2:846119/1‑150 (MQ=255) cTTGCTGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCt < 1:50769/150‑1 (MQ=255) gCTGTGGCGCCTTGTCACCAACGGCATCATCCCGGGGCTGTTCACATTGCT‑CAGT‑TGTCGACCTTCAGAGGACATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAACGCCTGCCGGGCCGATCAGCTG‑TCGGCCCGCCTGGa < 1:684693/150‑1 (MQ=255) cTGTGGCGCATTGTCACCAACGGCATCATCCCAGGGGTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGAc < 1:555849/150‑1 (MQ=255) gcgcATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTcgcg > 1:765316/1‑150 (MQ=255) gcgcATTGTCACAAAGGGCATCATCCCGGGGCTGTTCACATTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTcgcg > 1:317396/1‑150 (MQ=255) cATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCAc < 2:828358/150‑1 (MQ=255) tCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAGCTTAGTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGATG‑AGGGCCCGCCGGGACTCCCGCACCATCg > 1:515903/1‑150 (MQ=255) aCCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGcc < 2:339633/150‑1 (MQ=255) ccAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGccc > 2:719802/1‑150 (MQ=255) ccAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGccc < 1:610341/150‑1 (MQ=255) cGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCa < 1:499080/150‑1 (MQ=255) ggCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGCCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCAt < 1:814971/150‑1 (MQ=255) tcatcCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACg > 1:322999/1‑150 (MQ=255) cccGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCa > 2:413262/1‑141 (MQ=255) cccGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCa < 1:413262/141‑1 (MQ=255) ccGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTg > 1:514132/1‑150 (MQ=255) cGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGCGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTgg < 1:74500/150‑1 (MQ=255) cGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTgg > 1:469111/1‑150 (MQ=255) ggggCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCa > 1:807441/1‑99 (MQ=255) ggggCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCa < 2:807441/99‑1 (MQ=255) aCCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTggg > 2:81639/1‑140 (MQ=255) aCCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTggg < 1:81639/140‑1 (MQ=255) aCCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGgcg > 2:791060/1‑150 (MQ=255) gttgtGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCtt < 2:322999/150‑1 (MQ=255) tgtgtgTAGGCCTGTACCG‑‑CAGGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTg < 1:476438/150‑1 (MQ=255) tgtAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCCACCGCGGCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCa > 1:674496/1‑150 (MQ=255) gtAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAg > 2:995304/1‑150 (MQ=255) tAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGa > 2:391104/1‑150 (MQ=255) cTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGcc > 1:22857/1‑150 (MQ=255) tGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTTGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TAGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCg > 1:532864/1‑150 (MQ=255) aTGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTg < 1:846119/150‑1 (MQ=255) tGCTGATCGTGCCGCTGAACCAACTTCGCGGGCAGGCCGTTGCGTGGCGGGCGTATCAGCTG‑TCGGCCCTCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGc < 2:514132/150‑1 (MQ=255) cTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGACtctaa < 2:593348/150‑5 (MQ=255) ggCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGTCGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACgg < 2:189699/149‑1 (MQ=255) gCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGt < 1:538409/150‑1 (MQ=255) aaCTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGaa < 1:500710/92‑1 (MQ=255) aaCTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGaa > 2:500710/1‑92 (MQ=255) aCTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATgcagca > 2:171701/1‑150 (MQ=255) aCTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATgcagca > 2:499101/1‑150 (MQ=255) gcgAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGt < 1:995304/150‑1 (MQ=255) gcgAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGt < 2:515903/150‑1 (MQ=255) aGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGTGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGTtgctgc < 1:791060/150‑1 (MQ=255) gCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTggg > 2:294252/1‑74 (MQ=255) gCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTggg < 1:294252/74‑1 (MQ=255) gCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGTTGCTgcgc > 1:28408/1‑150 (MQ=255) gCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGTTGCTgcgc > 1:18789/1‑150 (MQ=255) cAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGc > 2:1085435/1‑107 (MQ=255) cAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGc < 1:1085435/107‑1 (MQ=255) tccaggCGGGCCGA‑CAGCTGATCGGCCCGCCAGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCATGGGACGGTGGCTATGCAGCAGCAGTTGCTGCGCGACCTg > 1:10739/5‑150 (MQ=255) ccTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGTTGCTGCGCGACCTGt < 1:171701/150‑1 (MQ=255) gggCCGA‑CAGCTGATCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGTTGCTGCGCGACCTGTCCCACg > 2:306582/1‑150 (MQ=255) aTCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGTTTGCTATGCAGCAGCAGTTGCTGCGCGACCTGTCCCACGAAATgc < 2:469111/150‑1 (MQ=255) tCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGTTGCTGCGCGACCTGTCCCACGAAATgcg > 1:756000/1‑150 (MQ=255) | ATCCGGGCCAGCACCGCTTGCTGTGGCGCATTGTCACCAACGGCATCATCCCGGGGCTGTTCACCTTGCTGTTGTGTGTAGGCCTGTACCG‑‑CATGCTGATCGTGCCGCTGAACCAACTTCGCGAGCAGGCCAATGCCTGGCGGGCCGATCAGCTG‑TCGGCCCGCCTGGACTCGCGCACCATCGCCCGGCATGACGAATTGGGCGAACTGGCGCGTGCCTTTGACCAGATGGCCGAGCGGCTGCAAGGCACGGTGGCTATGCAGCAGCAGTTGCTGCGCGACCTGTCCCACGAAATGCG > NC_002947/1846191‑1846488 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |