Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913987,5010TA50.0% 33.7 / 23.8 42intergenic (‑519/+84)ompF/asnSouter membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
Reads supporting (aligned to +/- strand):  ref base T (7/14);  new base A (21/0);  total (28/14)
Fisher's exact test for biased strand distribution p-value = 4.40e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACG  >  NC_000913/987356‑987645
                                                                                                                                                 |                                                                                                                                                 
aTCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGAtt                                                                                                                                              <  1:506003/151‑1 (MQ=255)
         gCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACtt                                                                                                                                     <  2:610729/151‑1 (MQ=255)
               aaaTAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAAATTGTTGTCTTaacaa                                                                                                                                >  1:387115/1‑150 (MQ=255)
                 aTAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTaacaaaca                                                                                                                             <  2:774088/151‑1 (MQ=255)
                 aTAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTaacaaaca                                                                                                                             <  2:1353/151‑1 (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)
                                                                                                                                           tGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACg  >  1:864589/1‑151 (MQ=255)
                                                                                                                                                 |                                                                                                                                                 
ATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTG‑ACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGCACG  >  NC_000913/987356‑987645

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: ‑