Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913987,4940TG58.5% 34.4 / 54.5 42intergenic (‑512/+91)ompF/asnSouter membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
Reads supporting (aligned to +/- strand):  ref base T (2/15);  new base G (24/0);  total (27/15)
Fisher's exact test for biased strand distribution p-value = 2.14e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.86e-07

TTCAGACATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGT  >  NC_000913/987349‑987637
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ttCAGACATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTg                                                                                                                                                <  2:509908/148‑1 (MQ=255)
       aTCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGAtt                                                                                                                                      <  1:506003/151‑1 (MQ=255)
                gCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACtt                                                                                                                             <  2:610729/151‑1 (MQ=255)
                      aaaTAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAAATTGTTGTCTTaacaa                                                                                                                        >  1:387115/1‑150 (MQ=255)
                        aTAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTaacaaaca                                                                                                                     <  2:1353/151‑1 (MQ=255)
                        aTAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTaacaaaca                                                                                                                     <  2:774088/151‑1 (MQ=255)
                            tATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGAt                                                                                                                  <  2:81683/150‑1 (MQ=255)
                                aaaaTTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTTCCAATAAATTTTTTTACTTaacaaaaaaaaaaatt                                                                                                             >  1:446235/1‑141 (MQ=255)
                                   aTTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAATTGCTTTACTTaaaaaacaaaaaa                                                                                                                >  1:938185/1‑140 (MQ=255)
                                        gCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAATAATTCTTTAATTAAAAAAAAAAAAAAATG‑ACAg                                                                                                       >  2:449562/1‑148 (MQ=255)
                                            ttAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGCTTCCAATCAATTTCTTTTCTTAACAAAAAAATAAcctaccaccaaaaa                                                                                                  >  1:538265/1‑137 (MQ=255)
                                              aGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATa                                                                                               <  1:663368/150‑1 (MQ=255)
                                                  aaGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATaaaaaa                                                                                          <  1:646322/151‑1 (MQ=255)
                                                     aaaaaaCTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAaga                                                                                       <  1:216512/151‑1 (MQ=255)
                                                     aaaaaaCTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAAATGCTTTATTTTAAAAAAAAAAAAAATT‑ACAGaaaaaaaaaaaaaaa                                                                                        >  2:39238/1‑149 (MQ=255)
                                                      aaaaaCTAATCCGCAATAAGAATGCGGATTAGTTTTCGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAAATGTTTGTCTTTACAAAAAAAAAAATTG‑ACAGAAAAAATaaaaaaaaa                                                                                       >  2:729390/1‑148 (MQ=255)
                                                            tAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAAATTATTGAATTTAAAAACACAAAAATTT‑ACaaaaaaaaaaaaaaaaaaagaca                                                                                  >  2:705496/1‑142 (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)
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TTCAGACATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGT  >  NC_000913/987349‑987637

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑