Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,862,672 G→A 43.7% pseudogene (931/1617 nt) glvC ← pseudogene, arbutin specific enzyme IIC component of PTS,enzyme, Transport of small molecules: Carbohydrates, organic acids, alcohols, PTS system, arbutin‑like IIB component, PTS system, arbutin‑like IIC component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,862,6720GA43.7% 1.4 / 2.3 18pseudogene (931/1617 nt)glvCpseudogene, arbutin specific enzyme IIC component of PTS,enzyme, Transport of small molecules: Carbohydrates, organic acids, alcohols, PTS system, arbutin‑like IIB component, PTS system, arbutin‑like IIC component
Reads supporting (aligned to +/- strand):  ref base G (6/3);  new base A (3/3);  total (10/8)
Fisher's exact test for biased strand distribution p-value = 6.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGTTAAGGTTGC‑GGGAATCAGCAAGCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTACATCGCTAAAGAAAT‑GCCCACGGCACC‑AAAGATTTTTGAGTTACCGTGC‑AGGG‑C‑AAAACCGCCTTCCGGGAACAACGATTTCAGCGGCTCGGCGCTCAAACTGAACTCTTGCAGATGCTGCGCCCAGTACATCTGAATGCCGCCTTCAACAGCTGCCGGACCAAAGATAAACTGTCCGT  >  NC_000913/3862450‑3862896
                                                                                                                                                                                                                                |                                                                                                                                                                                                                                       
tatCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGTTAAGGTTGC‑GGGAAACAGCAAGCCCA‑CCA‑Ctttt                                                                                                                                                                                                                       >  1:135186/1‑239 (MQ=255)
     gcgTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGATCAGGTTGC‑GGGAATCAGCAAACCCC‑CCC‑CTTTTTccc                                                                                                                                                                                                                   >  1:17210/1‑238 (MQ=255)
     gcgTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGGTGCGCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGGTCGGTAATTCCCACCAGCATGGCGGGTTAGAGTGGC‑GGGAA‑CAGCAAAgccg‑cccgcttttcacg                                                                                                                                                                                                                   >  2:274631/1‑228 (MQ=255)
             gCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGCTAAAGGTGCTGGGAACCA‑CAAACCCG‑CCACCTTTTCCCCGATTTTcg                                                                                                                                                                                                           >  2:319353/1‑238 (MQ=255)
                                 gtggcagaaaagCCTAGTCAAACAGCCCCCCCCCCAGTTTGCCCACCACACAAAAAAGAAACATCACGGCCGACATGGGCCCCGCCGGCGCGGCTTGTACCGCAAACACCAAGGGTGAAATGAACAGGAAGGAAAATTCCGGCGGTGCGTTAACCCCCACCAGCAGGGC‑GGTTAAGGTGGG‑GGGAATCAGAAAGCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTAc                                                                                                                                                                                         <  2:135186/228‑1 (MQ=255)
                                  tggCGATAAAACCTAATCAACCAGCCCCCCGCCCTTGTTGCCCACCCCACAAAAGAGAAACATGACGGTCGACATGGAGGCCGCAAGACCGGGGTGTCCCGAAAACAGAAAGGGGAAAAAAAACAGGAGGGAAAATCCCAGCGGTTCGGTATTCCCCACAAGCAGGGT‑GGTTAGGGTGGG‑GGAAAACAAAAACCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTACATCg                                                                                                                                                                                     <  2:309330/237‑1 (MQ=255)
                                                 gTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGTTTAAGTTGC‑GGGGATCAACAAACCCG‑CCC‑CCTTTTCTCCGCTTTCCGGTGCGGCCGGGGAGTACATCCCTCaaaaaactccc                                                                                                                                                                       >  2:127945/1‑233 (MQ=255)
                                                                                            tACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGGTAAAGTTGC‑GGGGATCAGCAAGCCCC‑CCACCTTTTACCC‑CTTTTTCGGTGCGGCCGTGAAAGAAATCGCCAAAAAAAA‑GCCCACCGCACC‑CAAGATTTTTTTGGTACCCCGC‑CGGGCC‑AAAAccc                                                                                                                        >  2:200519/1‑237 (MQ=255)
                                                                                                 tACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGTTAAAGTTTC‑GGGGATAAACAAACCCC‑CCC‑CCTTTTCCCCATTTTTCCGGGCGGCAGGGGAGGACAACGCCAAAGAAATACCCCACGCCCCC‑AAAAATTTTT‑AGTTACCCTGC‑CGGG‑CAAAAACCCCCTTcc                                                                                                                  >  2:389163/1‑239 (MQ=255)
                                                                                                   cGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGATAAGGGTGC‑GGGAATAAGCAAAACCC‑CCC‑CTTTTTTCCCATTTTTCGGGGCGGGAGTGGAGTAAATCGCCTAAGAAAA‑GACCCCGGCACCAAAAAATTTTTAAGTATCGGTGA‑GGGG‑C‑AAAAcacctcccggg                                                                                                                >  2:20137/1‑229 (MQ=255)
                                                                                                                              cGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGGTAAAGTTGC‑GGGGATCAACAAACCCGCCCC‑CTTTTCCCCGATTTT‑CGGGGCGGGCGGGAAGGAAAACGCTAAAGAAAA‑ACCCCCGGCACC‑AAAGAATTTTTAGGTACCGTGCAAGGG‑C‑AAAACGCCCTCCCGGCAAAAAC‑ATTTTAACGGCTCGgcggc                                                                                     >  2:266821/1‑236 (MQ=255)
                                                                                                                                      acAAACAGAAAGGGGAAAAAGAACAGGAAGTTAATTCCGCGGGGTTGGGTAATCCCCCCCAGGAGGGG‑GGTTAGGGTGGG‑GGAAAAAAACAAGCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTACATCGCTAAAGAAAT‑GCCCACGGCACC‑AAAGATTTTTGAGTTACCGTGC‑AGGG‑C‑AAAACCGCCTTCCGGGAACAACGATTTCAGCGGCTCGGCGCTCAAACTGaa                                                                            <  2:17210/238‑1 (MQ=255)
                                                                                                                                          aCAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGTTAAGGGTGC‑GGGGATCAGCAAGCCCG‑CCA‑CTTTTACCCGATTTTTCGGTGCGGCAGTGGAGTACATCGCTAAAGAAAA‑GCCCACGGGCCC‑AAAGAATTTTGTGGTACCGTGC‑CGGG‑C‑ACAACCGCCTTCCCGGaa                                                                                                             >  1:395678/1‑202 (MQ=255)
                                                                                                                                                                                                ccaccaGGGC‑GGTTAAGGTTGC‑GGAAATGAGCAAGCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTACATCGCTAAAGAAAT‑GCCCACGGCACC‑AAAGATTTTTGAGTTACCGTGC‑AGGG‑C‑AAAACCGCCTTCCGGGAACAACGATTTCAGCGGCTCGGCGCTCAAACTGAACTCTTGCAGATGCTGCGCCCAGTACATCTGAATGCCGCCTTCAACAGCTGCCGGACCa                  <  1:127945/239‑1 (MQ=255)
                                                                                                                                                                                                         c‑GGTGAAGGTTGT‑GGAAACAACCACGCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTACATCGCTAAAGAAAT‑GCCCACGGCACC‑AAAGATTTTTGAGTTACCGTGC‑AGGG‑C‑AAAACCGCCTTCCGGGAACAACGATTTCAGCGGCTCGGCGCTCAAACTGAACTCTTGCAGATGCTGCGCCCAGTACATCTGAATGCCGCCTTCAACAGCTGCCGGACCAAAGATaaa          <  1:20137/238‑1 (MQ=255)
                                                                                                                                                                                                          gggTAAAGGTTGG‑GGGAAACACAAAGCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTACATCGCTAAAGAAAT‑GCCCACGGCACC‑AAAGATTGTTGAGTTACCGTGC‑AGGG‑C‑AAAACCGCCTTCCGGGAACAACGATTTCAGCGGCTCGGCGCTCAAACTGAACTCTTGCAGATGCTGCGCCCAGTACATCTGAATGCCGCCTTCAACAGCTGCCGGACCAAAGATaaa          <  1:389163/237‑1 (MQ=255)
                                                                                                                                                                                                          cgtttAGGGGTGC‑GAGACGCAACAACCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTACATCGCTAAAGAAAT‑GCCCACGGCACC‑AAAGATTTTTGAGTTACCGTGC‑AGGG‑C‑AAAACCGCCTTCCGGGAACAACGATTTCAGCGGCTCGGCGCTCAAACTGAACTCTTGCAGATGCTGCGCCCAGTACATCTGAATGCCGCCTTCAACAGCTGCCGGACCAAAGATaaa          <  1:57365/235‑1 (MQ=255)
                                                                                                                                                                                                                  attGC‑GGAAATCAGCACGCCCG‑CCA‑CTTTTACCCTATTTTCCGGTGCGGCAGTGAAGTACATCGCTAAAGAAAT‑GCCCACGGCACC‑AAAGATTTTTGAGTTACCGTGC‑AGGG‑C‑AAAACCGCCTTCCGGGAACAACGATTTCAGCGGCTCGGCGCTCAAACTGAACTCTTGCAGATGCTGCGCCCAGTACATCTGAATGCCGCCTTCAACAGCTGCCGGACCAAAGATAAACTGTCCGt  <  1:102933/237‑1 (MQ=255)
                                                                                                                                                                                                                                |                                                                                                                                                                                                                                       
TATCCGCGTGGTTGCTGAACATCGGGATCCAGTTTTGCGGTAAAACCTAGTCAATCAGACCTCCGCCCATGTTGCCCACCACACCAAAGAGATACATTACGGTCGACATTGAGGCCGCCAGCACGGCGTGTACCGCAAACAGCAACGGTGAAATGAACAGGAAGGTAAATTCCAGCGGTTCGGTAATTCCCACCAGCATGGC‑GGTTAAGGTTGC‑GGGAATCAGCAAGCCCG‑CCA‑CTTTTACCCGATTTTCCGGTGCGGCAGTGAAGTACATCGCTAAAGAAAT‑GCCCACGGCACC‑AAAGATTTTTGAGTTACCGTGC‑AGGG‑C‑AAAACCGCCTTCCGGGAACAACGATTTCAGCGGCTCGGCGCTCAAACTGAACTCTTGCAGATGCTGCGCCCAGTACATCTGAATGCCGCCTTCAACAGCTGCCGGACCAAAGATAAACTGTCCGT  >  NC_000913/3862450‑3862896

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑