Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00091375,0910GT53.8% 12.4 / 32.6 26D130E (GAC→GAA) thiBthiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base G (1/11);  new base T (14/0);  total (15/11)
Fisher's exact test for biased strand distribution p-value = 1.55e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.27e-04

GTCATCGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGCCC  >  NC_000913/74947‑75240
                                                                                                                                                |                                                                                                                                                     
gTCATCGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTAGTTTTTTTTTTTCCTaa                                                                                                                                                 >  1:111165/1‑151 (MQ=255)
  cATCGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAAc                                                                                                                                               <  1:410953/151‑1 (MQ=255)
  cATCGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAAc                                                                                                                                               <  2:337590/151‑1 (MQ=255)
    tCGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGa                                                                                                                                             <  1:375402/151‑1 (MQ=255)
      gCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTAGTTTGTTTTTTTTATAAaagaag                                                                                                                                           >  1:187346/1‑151 (MQ=255)
                             gCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGTTTGTTCTTTTCATAAAAGAAGGGGAAGTAGCCATAATCAAACgg                                                                                                                    >  1:430350/1‑151 (MQ=255)
                                  aGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGGTTTTTCTTGTCCTAAAAGAAGGCGGAGAAGACATAATCAAACCGGACGa                                                                                                               >  1:307940/1‑151 (MQ=255)
                                   gACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTTGTTTTTTTTTTTTTTAAAAAAAAGGGAAGGAGACCTAATCAAACgggaggga                                                                                                              >  2:507072/1‑145 (MQ=255)
                                    ccccAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGaa                                                                                                              <  2:383412/149‑1 (MQ=255)
                                     cccAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAg                                                                                                            <  2:164939/151‑1 (MQ=255)
                                         gCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTTGTTTTTTCTTTTTATAAACGAAGGCGAAGAAGCCCTAATCAAAAGGGACGAAAgtgt                                                                                                         >  1:44417/1‑150 (MQ=255)
                                         gCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTTGTTTTTTTTTTTTATAAAAGAAGGCGAAGGAGCCAAAATAAAACAGTACGAAAgggt                                                                                                         >  1:368073/1‑150 (MQ=255)
                                               gtgtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTAGTTTTTTCTTTTCATAAAACAAGGCGGAATAGCCATAATCAAAAGGTAAGAAAGAGTCattttt                                                                                                  >  1:285640/1‑151 (MQ=255)
                                                tgtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTc                                                                                                 <  1:325406/151‑1 (MQ=255)
                                                 gtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGTTTTTTTTTTTTATAAACCAAGGCGGAGTGGGCCTAATCAAACGGGTCGCAAGTGTTattattt                                                                                                 >  2:486742/1‑149 (MQ=255)
                                                 gtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGTTTGTTTTTTTCATAAAAGAAAGCGGAGTAGGCATAATCAAACGGGACGAAAATGTCattattt                                                                                                 >  1:244900/1‑149 (MQ=255)
                                                                     aTAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACg                                                                            <  1:156865/151‑1 (MQ=255)
                                                                      aaaaTCCCCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACgg                                                                           <  2:100400/150‑1 (MQ=255)
                                                                               cGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGTTTTTTTTTTTCATAAAAGAAGGGGAAGGAGCCATAATTAAACGGTACGAAAGTGTCATTTTTTCAGCCGCCCGGAACGGTAAAGGCAACCGccg                                                                  >  2:541332/1‑149 (MQ=255)
                                                                                    gTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGTTTTTTTTTTTCATAAACGAAAGCGGAGTAGGCATAATTAAACGGTACGAAAGTGTCATTTTTTCAGCCGCCGGGAACGTTTACGGCATCCGCCGCccca                                                             >  1:352823/1‑151 (MQ=255)
                                                                                     ttttGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCacac                                                            <  1:394952/151‑1 (MQ=255)
                                                                                                  cAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTAGTTTGTTTTTTTCATAAAAGAAGGCGAAGTAGCCATAATCAAACGGGACGAAAGGGTCATTTTTCCAGCCGCCGGGGACGTTAAAGGCATCCCCTGCCACACCGCTTTTTGCaaa                                               >  1:326567/1‑151 (MQ=255)
                                                                                                  cAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTTGGTTTTTTTTTTTATAAACGAAGGCGAAGGAAGCCTAATAAAAACGGAAGAAAATGTTATTATTCCAACCGCCCGGGAAGTTTACGGCAACCGCTGCCCCACCCCCTTTTGTaaa                                               >  1:227181/1‑151 (MQ=255)
                                                                                                        gTTCTTTCAGGCTTTGTGGCGGGGTTTTTTGTTTTTTTTTTTTATAAAAGAAGGCGAAGGAGGCATAATCAAAAGGTACGAAAATGTCATTATTTCAGCCGCCGGGGACGTTAACGGCATCCCCCGCCCCACCCCTTTTTGCCAACaagc                                          >  2:603213/1‑147 (MQ=255)
                                                                                                          tCTTCCAGGTTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAACCGAAGGCAAATTGGCCATAATAAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTG‑CACACCGCTTTTGGCAAACAGTCCGGt                                      <  1:234500/151‑1 (MQ=255)
                                                                                                                               tttttCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAAc                   <  2:302848/150‑1 (MQ=255)
                                                                                                                                                gTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGccc  >  2:25534/1‑150 (MQ=255)
                                                                                                                                                gTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGccc  >  1:347657/1‑150 (MQ=255)
                                                                                                                                                |                                                                                                                                                     
GTCATCGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAATCAAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGCCC  >  NC_000913/74947‑75240

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑