Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_000913 | 1,622,816 | 0 | G | A | 42.6% | 46.7 / 49.4 | 54 | intergenic (+75/+144) | yneM/dgcZ | inner membrane‑associated protein/diguanylate cyclase, zinc‑sensing |
Reads supporting (aligned to +/- strand): ref base G (29/2); new base A (0/23); total (29/25) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 2.76e-13 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TATGGCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACGGAGCTTAAA > NC_000913/1622669‑1622964 | tATGGCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGaa < 2:275474/150‑1 (MQ=255) aTGGCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGaaa > 2:22230/1‑150 (MQ=255) ggCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGaaaaa < 1:866732/150‑1 (MQ=255) aCTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGc > 1:805640/1‑151 (MQ=255) cTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGcc > 2:835710/1‑151 (MQ=255) attttattttCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACcg > 1:146585/1‑151 (MQ=255) tttattttCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACcggc > 2:228348/1‑151 (MQ=255) tttattttCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACcggc > 2:1034479/1‑151 (MQ=255) ttattttCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACcggcg > 1:787990/1‑151 (MQ=255) ttttttttggttttcggcCCGCTTTTTCCAC‑CAAAAAAGGGGATGATAAAAGAACGGAAATAACCCCTCCCCT‑ACCGGCCCCTTTGTT‑ACTT‑TTGTGTACAGGGGCCT‑TGTTTTTT‑AGGA‑CGGAAAAAAAAAACCGCCAGTAAACcggc < 1:798560/147‑1 (MQ=255) attttCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACcggcgg > 1:208419/1‑150 (MQ=255) ttttctggttttctggCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTg > 1:744967/1‑151 (MQ=255) tgtttttctggCCGCTTTTTTCAC‑CCAAAAATGGGATGACTAATGAAGGGAGATAACCCCTCCCCTACCCGCCCCT‑TTTTT‑CAAG‑TTGTGTAAAGGGGGCT‑TGTTTTTT‑ATGA‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGaa < 2:797527/145‑1 (MQ=255) tttcttgCCGGTTTTTTCAGCCCAAAAGGGGGATGATAAAGGAAGGGAAATAACCCCCCCCCAACCCGCCCCC‑TTTTA‑AATG‑TTGT‑TAAAAGGGGGC‑GGTTTTTT‑AAGAGCGGAAAAAAAAACCCGCCAGTAAACCGGCGGTGaa < 1:551104/145‑1 (MQ=255) ctggCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATg > 2:1034220/1‑151 (MQ=255) tggCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGTGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATgg > 1:101193/1‑151 (MQ=255) tggCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGACAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATgg > 2:544114/1‑151 (MQ=255) ccGCTTATTACAC‑CCACAAGTGGGAGAAATAATGAGCGGAAAAACCCCCCCACCAACCCGCCCCC‑TTGTA‑ACAG‑‑TGGGAAAAAGGGGCCTTTTTTTTT‑ATGA‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATa < 1:800189/151‑1 (MQ=255) gtgTATTCCAC‑CCACAAAGGGGATGACTAATAAACGGAGATAACCCCTCACCTACCCGCCCCT‑TTTTT‑ACAG‑TTGTGTACAGGGGGCC‑TAATTTTT‑ATGA‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAg < 2:48904/148‑1 (MQ=255) gcgTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGa > 1:194960/1‑147 (MQ=255) cgTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATgg > 1:731440/1‑145 (MQ=255) tttCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTtgt > 2:326498/1‑151 (MQ=255) aaaaaGGGGATGATTAAAAAAGGGAGATACCCCCCCCCCTACCCGCCCCT‑TTGTT‑ACGT‑TTGTGTACAGGGGGCT‑TGTTTTTT‑AGGC‑GGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTgtgt < 2:417979/143‑1 (MQ=255) aaaGGGGATGAAAAAAGAAGGGAAATAACCCCCCCCCAACCCGGCCCC‑TTGTT‑AAAT‑TTGTGTAAAAGGGGCC‑TGTTTTTT‑ATGG‑GGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGc < 2:1012314/148‑1 (MQ=255) gggATAAATAATGAAGTGAAATACTCCCCCACCAACCCGCCCCT‑TTGTT‑ACAG‑TGGTGGAAAGGGGCCC‑TGTTTTTT‑ATGC‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTa < 2:879193/149‑1 (MQ=255) aaaaaTGAAGGGAAATACCCCCTC‑CCCAACCGGCCCC‑TTTTTAACTG‑TTGTTTA‑AAGGGGCC‑TTATTTTTAAGGC‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACa < 2:141265/148‑1 (MQ=255) cTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAAc > 2:350082/1‑149 (MQ=255) aagaaaCGGAAATAACCCCCCCCCAACCCGCCCCT‑TTGTT‑ACA‑‑TTTTTTCAAAGGGGCCTTTTTTTTT‑ATGC‑GGGCAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAAc < 2:797181/143‑1 (MQ=255) aaCGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCAttt > 2:756484/1‑151 (MQ=255) ggAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTcc > 2:215462/1‑151 (MQ=255) aacccccccccTACCCGCCCCG‑TGGTA‑ACAG‑TTTTGTACAGGGGGCT‑TTTTTTTT‑AGGA‑AGAAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACt < 1:358427/142‑1 (MQ=255) accccctccccaaCCCGCCCC‑TTTTT‑TAAGTTTGTGAACAGGGGGCT‑TTTTTTTT‑ATGA‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCt < 2:147982/135‑1 (MQ=255) ccccccccaaaCCGGCCCT‑TTTTT‑ACAG‑TTTGGAAAAGGGGGCC‑TTTTTTTT‑AGGG‑GGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGa < 1:803861/141‑1 (MQ=255) ccccCACCTACCCGCCCCT‑TTTTT‑ACAG‑TTGTGTAAAGGGGGCT‑TGTTTTTT‑ATGC‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTg < 1:429497/149‑1 (MQ=255) cccTCCCCTACCCGCCCCT‑TTTTT‑ACAG‑TTTTGTACAGGGGGCT‑TGTTTTTT‑AGGA‑CGGCAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGAt < 2:755007/151‑1 (MQ=255) cccTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGAt > 1:524880/1‑151 (MQ=255) ccTACCCGCCCCT‑TTTTT‑ACAT‑TTGTTTAAAGGGGGCT‑TGTTTTTT‑ATGC‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGaa < 1:835524/151‑1 (MQ=255) tAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCCCTGATAACGAAt > 1:747958/1‑150 (MQ=255) ggCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTg > 2:707520/1‑150 (MQ=255) ccct‑TTTTT‑ACAG‑TTGTGGAAAAGGGGCT‑TTTTTTTT‑AGGA‑CGGCAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGaca < 1:846516/151‑1 (MQ=255) t‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGc > 1:372447/1‑150 (MQ=255) aCAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCAt > 1:117000/1‑151 (MQ=255) aCAG‑TTGTGTAAAGGGGGCT‑TGTTTTTT‑AGGA‑GGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCa < 2:60236/150‑1 (MQ=255) acgtttGTGAAAAGGGGGCT‑TTTTTTTT‑ATGG‑GGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCa < 2:672556/146‑1 (MQ=255) gtgtgaaaagggggCC‑TTTTTTTT‑AGGA‑CGACAAAAAAAATCCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCa < 2:880922/136‑1 (MQ=255) tgtgTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGGTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGtt > 1:414956/1‑151 (MQ=255) taaaaGGGGCT‑GGTTTTTT‑ATGC‑GGAAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCATTGACACAGTAGCATCAGtttt < 1:185311/146‑1 (MQ=255) aCAGGGGGCT‑TTTTTTTT‑TTGC‑CGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGTATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTtctc < 1:175473/151‑1 (MQ=255) aaGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCa > 2:818916/1‑150 (MQ=255) gggtttttttttt‑AGGA‑CGAAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCaatga < 1:1014550/143‑1 (MQ=255) gATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGtt > 2:398960/1‑150 (MQ=255) ttttt‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTaa > 2:484275/1‑150 (MQ=255) tttt‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTaaa > 1:879759/1‑150 (MQ=255) cGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACGGAGCTTaaa > 2:41838/1‑150 (MQ=255) | TATGGCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAG‑CCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCC‑TTGTT‑ACAG‑TTGTGTACAAGGGGCC‑TGATTTTT‑ATGA‑CGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACGGAGCTTAAA > NC_000913/1622669‑1622964 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |