Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913987,5290CA43.2% 69.3 / 21.0 44intergenic (‑547/+56)ompF/asnSouter membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
Reads supporting (aligned to +/- strand):  ref base C (13/12);  new base A (19/0);  total (32/12)
Fisher's exact test for biased strand distribution p-value = 3.39e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACC  >  NC_000913/987389‑987677
                                                                                                                                            |                                                                                                                                                     
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)
                                                                                                          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         <  2:572645/151‑1 (MQ=255)
                                                                                                                                   aacaGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGtt         >  2:122756/1‑151 (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)
                                                                                                                                            |                                                                                                                                                     
GCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACGCCAGTTACGTAAGCAATCAGACGTTCAAAACC  >  NC_000913/987389‑987677

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑