Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,982,5510GA51.6% 12.2 / 37.0 31intergenic (‑164/+3)otsB/araHtrehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base G (1/14);  new base A (16/0);  total (17/14)
Fisher's exact test for biased strand distribution p-value = 5.66e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.89e-07

CTTTTCTTATTGTGTTGCGCAGAACGCGCTTTACAGACATGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGAAATATTAAGCAGGTTCATGGCGTTTTCCACGGTGCCTAAAATTAAGATACCCGC  >  NC_000913/1982405‑1982700
                                                                                                                                                  |                                                                                                                                                     
ctTTTCTTATTGTGTTGCGCAGAACGCGCTTTACAGACATGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGCATGGGGGGGAAAAAAGCTAAAATGTTGCAGAAAAAAACAt                                                                                                                                                    >  2:201258/1‑150 (MQ=255)
    tCTTATTGTGTTGCGCAGAACGCGCTTTACAGACATGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGAc                                                                                                                                               <  1:162722/151‑1 (MQ=255)
      ttATTGTGTTGCGCAGAACGCGCTTTACAGACATGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGTATGGGGGGGAAAAAAACTAAATTGTTTTAGAAAAAAACATCAAACAg                                                                                                                                             >  2:97077/1‑151 (MQ=255)
                                       tGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGGAAAAAAGCTAAATTGTTGCAGAAAAAAACATCAGACAGTGCGTTTTGCTTTTTTCTTGTAACGGGCGAAGa                                                                                                            >  2:172292/1‑151 (MQ=255)
                                       tGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGGGGGGAAAAAAGCTAAATTGTTGCAGAAAAAAACATCAGACAGTGCGTTTTGCTTTTTGCTTTTAACGGGCGAAGa                                                                                                            >  2:78079/1‑151 (MQ=255)
                                         tAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGGTTGGTATGGGGGGGAAAAAAGCAAAAATATTTCAGAAAAAAAGATCAGACAGTGCGGTTTGCTTTTTTTTTTTAAAGGGCGaaaaat                                                                                                          >  2:41961/1‑147 (MQ=255)
                                          aaGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGTGTGGTGGGGAAAAAAACTAAAATGTTGCAGAAAAAAAAAACAGACAGTGCGGTTTGCTTTTTTTTTGTAACGGGCGAAGATCa                                                                                                         >  1:52339/1‑151 (MQ=255)
                                           aGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTTGGTATGGGGGGGAAAAAAGCTAAAATTTTGCAGAAAAAAACATCAGACAGTGGGGTTTGCTTTTTTTTTGTAAAGGGCGAAGAACa                                                                                                         >  2:353439/1‑150 (MQ=255)
                                           aGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTTGCTTTGGGGGGGAAAAAAGCTAAAATTTTGCAGAAAAAAACAACAGAAAGTGCGGTTTGCTTTTTTCTTTTAAAGGGGGAAGAACa                                                                                                         >  2:85986/1‑150 (MQ=255)
                                           aGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGTATGGTGGGGAAAAACGCTAAATTTTTGCAGAAAAAAACATCAGACAGTGCGTTTCGCTTTTTTCTTTTAACGGTCGAAGATCa                                                                                                         >  2:317320/1‑150 (MQ=255)
                                           aGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGTATGGTGGGGAAAAAAACCAAAATTTTTCAGAAAAAAACAACAGAAAATGGGGTTTGCTTTTTTTTTTTAAAGGGGGAAGaaaa                                                                                                         >  1:142079/1‑147 (MQ=255)
                                           aGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGGAAAAAAGCTAAATTGTTGCAGAAAAAAAAATCAGACAGTGCGGTTTGCTTTTTTCTTGTAAAGGGCGAAGATCa                                                                                                         >  2:38691/1‑150 (MQ=255)
                                           aGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGGTGGGTATGGTGGGGAAAAAAACTAAAATTTTTCAGAAAAAAACATCAGAAAGTGCGGTTTGCTTTTTGTTTGTAAAGGGCGGAGAtaa                                                                                                         >  1:160673/1‑148 (MQ=255)
                                           aGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGGTGGGTATGGGGGGGAAAAAAACTAAAATGTTGCAGAAAAAAAGATAAGACAGAGCGGTTTGCTTTTTTCTTGTAAAGGGCggaaaaca                                                                                                         >  1:350687/1‑143 (MQ=255)
                                            gTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGGTATGGGGGGGAAAAAAGCTAAATTGTTGCAGAAAAAAACATCAGACAGTGCGGTTTGCTTTTTTCTTGTTACGGGCGAAGATCAc                                                                                                        >  2:280510/1‑150 (MQ=255)
                                              ataGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTGGAAGATCACCGc                                                                                                     <  1:323985/151‑1 (MQ=255)
                                              ataGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGc                                                                                                     <  2:20258/151‑1 (MQ=255)
                                                     gtgtGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGGGGGGAAAAAAGCTAAATTTTTGCAGAAAAAAACAACAGACAGTGCGGTTCGCTTTTTTTTTGTAACGGTCGGAGAAAACCGCCGCcag                                                                                               >  2:261338/1‑150 (MQ=255)
                                                          aCGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGAt                                                                                         <  1:439895/151‑1 (MQ=255)
                                                                gTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGc                                                                                    <  2:222291/150‑1 (MQ=255)
                                                                           cAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGt                                                                        <  1:332050/151‑1 (MQ=255)
                                                                             aCGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTAc                                                                      <  2:24796/151‑1 (MQ=255)
                                                                             aCGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTAc                                                                      <  2:348573/151‑1 (MQ=255)
                                                                             aCGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTAc                                                                      <  2:357341/151‑1 (MQ=255)
                                                                                aagaaCAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTg                                                                    <  1:214461/150‑1 (MQ=255)
                                                                                              gTTATGGCGGTTGGCTATGGTGGGAAAAAAAGCTAAATTGTTGCAGAAAAAAACATCAGAAAGTGCGGTTCGCTTTTTGCTTGTAAAGGGCGAAGATAACCCCTGCCCGAAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGaaaa                                                     >  2:100393/1‑150 (MQ=255)
                                                                                                tATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGAAatat                                                   <  2:469871/151‑1 (MQ=255)
                                                                                                     cGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGAAATATTAAGc                                              <  1:359525/151‑1 (MQ=255)
                                                                                                         tGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGAAATATTAAGCAGGt                                          >  1:77025/1‑151 (MQ=255)
                                                                                                               tggtggGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGAAATATTAAGCAGGTTCATgg                                    <  2:350102/151‑1 (MQ=255)
                                                                                                                                            aaaaaaGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGAAATATTAAGCAGGTTCATGGCGTTTTCCACGGTGCCTAAAATTAAGATa       <  1:322944/151‑1 (MQ=255)
                                                                                                                                                  gCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGAAATATTAAGCAGGTTCATGGCGTTTTCCACGGTGCCTAAAATTAAGATACCCGc  >  1:462171/1‑150 (MQ=255)
                                                                                                                                                  |                                                                                                                                                     
CTTTTCTTATTGTGTTGCGCAGAACGCGCTTTACAGACATGTAAGTATAGACAGTGTGACGGGGGTCGCCATTTGCAACGAAGAACAGCCAACCGTTATGGCGGTTGGCTATGGTGGGAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAGACAGTGCGTTTCGCTTTTTGCTTGTAACGGTCGAAGATCACCGCTGCCAGCAGGATTAAGCCGCGAACCACGTACTGCGCGAAAGGAGAAATATTAAGCAGGTTCATGGCGTTTTCCACGGTGCCTAAAATTAAGATACCCGC  >  NC_000913/1982405‑1982700

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑