Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 1,637,296 | T→C | 10.0% | intergenic (+5/+61) | pdxJ → / ← PP_1437 | pyridoxine 5'‑phosphate synthase/heavy metal sensor histidine kinase |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 1,637,296 | 0 | T | C | 10.0% | 132.8 / 4.8 | 50 | intergenic (+5/+61) | pdxJ/PP_1437 | pyridoxine 5'‑phosphate synthase/heavy metal sensor histidine kinase |
Reads supporting (aligned to +/- strand): ref base T (21/24); new base C (3/2); total (24/26) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 6.61e-01 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAACGTCGAGGCGGTGGCGGCGATCAAGGGTATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCATGCAACTGCATG > NC_002947/1637153‑1637441 | caACGTCGAGGCGGTGGCGGCGATCAAGGGTATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCg > 4:309026/1‑149 (MQ=255) ggcgATCAAGGGTATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCTGTGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTc > 1:263160/1‑149 (MQ=255) ggcgATCAAGGGTATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TCGGCCGCCTGTGCTGGCCTCTTcg > 4:92119/1‑149 (MQ=255) cAAGGGTATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCCGAGTGATCGGCCGCCTGTGCTGGCCTCTTCGCGGGc > 6:317772/1‑149 (MQ=38) tATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCggg > 8:85036/1‑141 (MQ=255) tATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCggg < 7:85036/141‑1 (MQ=255) tATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGATTCAATGCTGCTGTGCCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATAG‑TTGGTCGCCTGTACCGGACTTTTCGCGGGCAAGCCcg > 5:113991/1‑149 (MQ=255) aTGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAag < 5:73485/149‑1 (MQ=255) tGAGTTGAACCTTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTAAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAaga < 5:248602/149‑1 (MQ=255) tGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCTTGCCCGCGaaaa < 7:93395/149‑3 (MQ=255) tGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTCTTCGCGGGCTTGCCCGCGaaaa < 8:314554/149‑3 (MQ=255) aGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCTTGCCCGCGAaaag < 3:140429/148‑1 (MQ=255) aGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCCGAGTGATCGGCCGCCTGTGCTGGCCTCTTCGCGGGCTTGCCCGCGAaaag < 5:317772/149‑1 (MQ=25) gAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCa < 1:201394/148‑1 (MQ=255) gAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAg > 1:183594/1‑149 (MQ=255) aaCATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTGCTGGCCTCTTCGCGGGCTTGCCCGCGAAAAGGccgg > 6:73722/1‑146 (MQ=38) aCATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGca > 3:188429/1‑149 (MQ=255) aTTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGc < 2:173094/126‑1 (MQ=255) ggCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TCGGCCGCCTGTGCTGGCCTCTTCGCGGGCTTGCCCGCGAAAAGGCCGGTACAggc > 2:180775/1‑149 (MQ=25) cATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTTTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGTTTG‑TTGGTCGCCTGTAGCGGCCTTATCGCGGGCTAGCCCGCGAAGAGGCCAGCACAggcggc < 6:113991/149‑1 (MQ=255) aTGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGcc > 4:211487/1‑149 (MQ=255) cgcTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTGCTGGCCTCTTCGCGGGCTTGCCCGCGAAAAGGCCGGTACAGGCGAccaa < 5:73722/148‑3 (MQ=25) cgcTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGa < 2:183594/148‑1 (MQ=255) gcTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TCGGCCGCCTGTGCTGGCCTCTTCGCGGGCTTGCCCGCGAAAAGGCCGGTACAGGCGAccaaca < 1:180775/149‑5 (MQ=21) gcATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAg > 4:268027/1‑149 (MQ=255) tgtCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAgg < 3:309026/148‑1 (MQ=255) gtCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAggg < 8:150716/148‑1 (MQ=255) cAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCggg > 1:242889/1‑149 (MQ=255) aaGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCggg > 4:109841/1‑148 (MQ=255) tggCTGGTGTGGCCGAGATGAAGGCTCTGATCGTGGCGGCTTCGCGGTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCTGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTa < 3:192643/148‑1 (MQ=255) gctgctGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAgg > 3:256957/1‑149 (MQ=255) tgGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCa < 3:109841/147‑1 (MQ=255) gCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAggg < 2:263160/148‑1 (MQ=255) ccGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAggggg > 1:265025/1‑149 (MQ=255) cGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAggggg > 4:159733/1‑148 (MQ=255) agaTGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAaga > 6:271273/1‑81 (MQ=255) agaTGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAaga < 5:271273/81‑1 (MQ=255) gAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAgctgc > 5:177783/1‑149 (MQ=255) gcgcTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGAc > 5:203766/1‑149 (MQ=255) gcgcTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGAc < 4:256957/149‑1 (MQ=255) gcTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCt < 3:159733/149‑1 (MQ=255) aTCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGAc < 4:188429/149‑1 (MQ=255) tCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGAcc < 3:268027/149‑1 (MQ=255) ggcTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAgggg > 2:309265/1‑123 (MQ=255) ggcTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAgggg < 1:309265/123‑1 (MQ=255) ttCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCAt > 4:328879/1‑149 (MQ=255) gcgcTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCATGc > 1:326217/1‑148 (MQ=255) cgcTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCATGCaa < 3:211487/149‑1 (MQ=255) cTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCATGCAACt < 2:242889/149‑1 (MQ=255) aTTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCATGCAACTGCa > 3:314413/1‑149 (MQ=255) ttg‑ttgGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCATGCAACTGCAt > 6:183018/1‑149 (MQ=255) g‑ttgGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCATGCAACTGCATg < 6:177783/148‑1 (MQ=255) | CAACGTCGAGGCGGTGGCGGCGATCAAGGGTATCAATGAGTTGAACATTGGCCATGCGCTGGTGGCGCATGCCT‑TGTTTGTCGGCTTCAAGGCTGCTGTGGCCGAGATGAAGGCGCTGATCGTGGCGGCTTCGCGCTGATTG‑TTGGTCGCCTGTACCGGCCTTTTCGCGGGCAAGCCCGCGAAGAGGCCAGCACAGGCGGCCGATCACTCGGCAGGAAACACCAGGGTAAACCGGGTAGGCCCCAGGGGGCAGCTGCTGACCTCGACCCGCCCGCCATGCAACTGCATG > NC_002947/1637153‑1637441 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |