Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913987,5510GA42.2% 29.2 / 46.5 45intergenic (‑569/+34)ompF/asnSouter membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
Reads supporting (aligned to +/- strand):  ref base G (16/10);  new base A (19/0);  total (35/10)
Fisher's exact test for biased strand distribution p-value = 2.45e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGACCGAAACCTGAATGCGG  >  NC_000913/987402‑987698
                                                                                                                                                      |                                                                                                                                                   
aaaaaaCTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAaga                                                                                                                                                    <  1:216512/151‑1 (MQ=255)
         aTCCGCAATAAGAATGCGGATTAGTTTTTGCACGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCggg                                                                                                                                           <  2:754552/151‑1 (MQ=255)
            cGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAAATTCTTGACTTTACAAAAAAAAAAATTGAACAAAAAAAAAAAAAAAAAAGCAAACgggg                                                                                                                                          >  1:49481/1‑149 (MQ=255)
                  aaGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAATTGATTGTCTTATCAAAAAAATAACTTT‑ACAGAAAAAAAAAAAAAAAAACAAACGGgcggcgggt                                                                                                                                   >  2:475099/1‑144 (MQ=255)
                  aaGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGGGGAAAAAAAATGCTTTAGTTTACAAAAAGATAAAATT‑AAAGAAAAAAAAAAAAAAAAGACAGCGGGGGCCGGctc                                                                                                                                  >  2:317584/1‑151 (MQ=255)
                   aGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAAATGCTTGACTTTACAAAAAAATAAATTT‑ACAGAAAAAATAAAAAAAAAGGCAGCGGGCGCTgg                                                                                                                                     >  1:311055/1‑147 (MQ=255)
                      aTGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAGATTGCTTTACTTTACAAACAAATAACTTT‑ACAGAAAAAAAAAAAAAAAAAACAGCGGGCGCTGGCTCtt                                                                                                                                >  1:463257/1‑149 (MQ=255)
                       tGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAAATTTTTTTCTTAACAAAAAAAAAAAATG‑ACAAAAAAGAAAAAAAAAAAAACAACGGGGGCTGGCGCtt                                                                                                                                >  1:658163/1‑148 (MQ=255)
                        gtggATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGCAATAAAATAGTTGTATTTAAAAAAAAATAAATTG‑ACAGAAAAAAAAAAAAAAAAGACAGCGGGCGCCgggcctt                                                                                                                                >  2:237583/3‑142 (MQ=255)
                          ggATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCTAAAAGATTGTTTGTCTTTAAAAACAGATAACATG‑ACAGAAAAAATAAAAAAAAAAACAGAGGGGGCGGGCCCTTGaa                                                                                                                             >  1:107384/1‑148 (MQ=255)
                              tAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCt                                                                                                                       <  2:642723/150‑1 (MQ=255)
                                  ttttGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAATTTCTTGACTTTAAAAAAAAAAAAATTT‑TCAGAAAAAAAAAAAAAAAAGACAGCGGGGGCCGGGGCTTTAAGAAGCCaaa                                                                                                                    >  1:608359/1‑149 (MQ=255)
                                   tttGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGCAAAAAATTGGTTGACTTAACAAAAAAAAAAATTT‑AAAGAAAAAAAAAAAAAAAAACCCACGGGGGCCGGCTCCTTGAGAAGCTaaa                                                                                                                    >  1:1005129/1‑148 (MQ=255)
                                        gcgTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAATTTCTTTACTTAAAAAAAAAATAAATTT‑ACAGAAAAAAAAAAAAAAAAAACAACGGGGGCTGGGCCTTTAAGAAGCCAAAATAGaa                                                                                                              >  1:336272/1‑149 (MQ=255)
                                          gTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTg                                                                                                          <  1:562853/151‑1 (MQ=255)
                                           tAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGGGCTAAAAAAATGTTTTAGTTTAAAAAAAAATAAACTG‑ACAGAAAAAATAAAAAAAAAAAAAGCGGGGGGCGGGGCTTGTAGAAGCCAAAATAGaaaa                                                                                                            >  1:860748/1‑146 (MQ=255)
                                            aaaTGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGc                                                                                                        <  1:1051389/151‑1 (MQ=255)
                                            aaaTGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGGAAAAAATTGCTTGTCTTTAAAAAAAAATAACTTT‑ACAGAAAAAAAAAAAAAAAAGACAGCGGGGGCCGGCTCTTTAAGACGCCAAAATaaaaaacg                                                                                                          >  1:355322/1‑145 (MQ=255)
                                            aaaTGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGCAATAAATTGGTTGCCTTAAAAAACAAAAAAATTT‑ACAGAAAAGAAAAAAAAAAAACCAACGGGGGCGGGGTCTTGTAGAAGCCAAATTaaa                                                                                                               >  1:840648/1‑142 (MQ=255)
                                               tGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTGGGAAAAAGAATTGTTTTCTTAACAAAAAAATAAAATG‑TACGAAAAAAAAAAAAAAAAAACAACGGGCGCTGGCCCTTTGAGAAGCCAAAATaaaaaatgggggt                                                                                                     >  2:1043937/1‑142 (MQ=255)
                                                     aaTGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAATTTCTTTTTTTAAAAAACAGATAAATTG‑ACAGAAAAAAAAAAAAAAAAGACAGCGGGGGCTGGGGCTTTAAGACGACAAAATAGAAAAGGGCGTTACGCgg                                                                                               >  2:589422/1‑151 (MQ=255)
                                                          aaTATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTAc                                                                                          <  1:928136/151‑1 (MQ=255)
                                                          aaTATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAATAGATTGTTTTTATTTAAAAACAAAAAAATTT‑AAAGAAAAAATAAAAAAAAAAACAACGGGGGCCGGCCCTTTTAGAAGCCAAAATAAAAAATGGCGGTTCGCgggg                                                                                             >  1:1009989/1‑146 (MQ=255)
                                                                   tAACAGGATGATCGTTATGGCGGGGGTGGCAATAGAATGGTTGGCTTTAAAAAAAGAAAAAATG‑AACAAAAAGAAAAAAAAAAAGGCAGCGGGGGGGGGCTCCTGAAAAAGCCAAAATATAAGATGGCGGTAAGCCGAAAACGTGGGaa                                                                                   >  1:625122/1‑149 (MQ=255)
                                                                             atCGTTATGGCGGGGTTGCAAAAAAATTGCTTGACTTAAAAAAAAGATAAAATG‑ACAGAAAAAATAAAAAAAAAACCAGCGGGCGCTGGCTCTTTTAAACGCCAAAATAAAAACTGGCGTTACGCGGAGGACGTGGGGAAGGGatca                                                                           >  2:132539/1‑147 (MQ=255)
                                                                                     ggCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCacgtacgt                                                               <  1:112510/151‑1 (MQ=255)
                                                                                             tGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACg                                                       >  1:864589/1‑151 (MQ=255)
                                                                                                              aCTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAAt                                      >  1:708764/1‑151 (MQ=255)
                                                                                                                 tAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATc                                     >  2:538374/1‑149 (MQ=255)
                                                                                                                  aacaaacaGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATc                                     >  1:499792/1‑148 (MQ=255)
                                                                                                                   acaaacaGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTATGTTTTGCACGCCAGTTACGTAAGCAATCAGAc                                 <  2:574533/151‑1 (MQ=255)
                                                                                                                    caaacaGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACg                                <  1:558506/151‑1 (MQ=255)
                                                                                                                      aacaGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGtt                              >  2:122756/1‑151 (MQ=255)
                                                                                                                      aacaGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGtt                              <  2:572645/151‑1 (MQ=255)
                                                                                                                        caGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTc                             >  2:959186/1‑150 (MQ=255)
                                                                                                                         aGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGATACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCa                            >  2:96344/1‑150 (MQ=255)
                                                                                                                          gATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCaa                           >  1:694794/1‑150 (MQ=255)
                                                                                                                             aaCTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAAcc                       >  1:491653/1‑151 (MQ=255)
                                                                                                                                 tG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCaa                     <  2:426769/149‑1 (MQ=255)
                                                                                                                                  g‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGAc                  >  1:762004/1‑151 (MQ=255)
                                                                                                                                        aaaaGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGACCGaa              >  1:623565/1‑150 (MQ=255)
                                                                                                                                        aaaaGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGACCGaa              >  2:659021/1‑150 (MQ=255)
                                                                                                                                                aaaaaaGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGGACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGACCGAAACCTGAATg     >  2:707694/1‑151 (MQ=255)
                                                                                                                                                   aaaGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGACCGAAACCTGAATGCgg  >  2:290090/1‑151 (MQ=255)
                                                                                                                                                   aaaGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGACCGAAACCTGAATGCgg  >  1:1021734/1‑151 (MQ=255)
                                                                                                                                                    aaGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGACCGAAACCTGAATGCgg  >  1:504400/1‑150 (MQ=255)
                                                                                                                                                      |                                                                                                                                                   
AAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACCAAGACCGAAACCTGAATGCGG  >  NC_000913/987402‑987698

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑