Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	987,494	0	T	G	45.6%	88.2 / 17.1	57	intergenic (‑512/+91)	ompF/asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
Reads supporting (aligned to +/- strand):  ref base T (7/24);  new base G (26/0);  total (33/24)
Fisher's exact test for biased strand distribution p-value = 3.60e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTTCAGACATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGC  >  NC_000913/987348‑987642                                                                                                                                                   |                                                                                                                                                     tttCAGACATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTgg                                                                                                                                                   >  1:581105/1‑149 (MQ=255)    cAGACATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCaaa                                                                                                                                                <  1:981583/150‑1 (MQ=255)    cAGACATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCaaa                                                                                                                                                <  1:698694/150‑1 (MQ=255)         aTCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGaaaaa                                                                                                                                              >  2:288141/1‑145 (MQ=255)            cAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGc                                                                                                                                        <  1:197559/150‑1 (MQ=255)             aGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGCAATaaaattgtt                                                                                                                                      >  2:415407/1‑143 (MQ=255)               aaTGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGa                                                                                                                                    <  1:81589/151‑1 (MQ=255)                aTGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAATTTCtt                                                                                                                                      >  2:397862/1‑148 (MQ=255)                  gCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACtt                                                                                                                                 <  2:969554/151‑1 (MQ=255)                  gCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACt                                                                                                                                  <  2:84263/150‑1 (MQ=255)                   ccAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCgaaaaaaatcctttgttt                                                                                                                                 >  1:694322/1‑135 (MQ=255)                        aaaTAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGGAAAAAATTGGTTGTCTTaaaaa                                                                                                                            >  1:970997/1‑150 (MQ=255)                          aTAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAATATATTTTTTGTCTTtaaaaa                                                                                                                           >  1:195683/1‑149 (MQ=255)                               aTGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATaa                                                                                                                    <  1:489575/151‑1 (MQ=255)                                tGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTTCTAATAAATTTTTTGTTTTTAAAAACAAATaa                                                                                                                    >  2:260737/1‑150 (MQ=255)                                     aTTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAATAAAATTCTTGTCTTAACAAAAAGAAAAAtt                                                                                                                 >  1:150231/1‑148 (MQ=255)                                       tgtgCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCCAAAAGATTGCTTGACTTTAAAAACAAATaa                                                                                                                    >  1:335119/1‑143 (MQ=255)                                        gtgCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAg                                                                                                            <  2:373504/150‑1 (MQ=255)                                               tAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAATAGATTGCTTTACTTAAAAAAAAAAAAAATTTACAGAAAAGa                                                                                                      >  1:83065/1‑149 (MQ=255)                                                aGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATaa                                                                                                   <  1:847349/151‑1 (MQ=255)                                                    aaGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATaaaa                                                                                                 <  2:329143/149‑1 (MQ=255)                                                        aaaaaCTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTTGAAAAAGATTGGTTGTATTAACAAACAGAAAAAATTAGAGAAAAGATaaaaaaaaa                                                                                            >  1:419513/1‑148 (MQ=255)                                                         aaaaCTAATCCGCAAT‑AGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAGAATTCTTTTCTTAAAAAAAAAAAAAATTGACAGaaaaaaaaaaaaaaaa                                                                                            >  1:507745/1‑146 (MQ=255)                                                           aaCTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCa                                                                                        <  2:557192/151‑1 (MQ=255)                                                           aaCTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCa                                                                                        <  1:480629/151‑1 (MQ=255)                                                           aaCTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCa                                                                                        <  1:869505/151‑1 (MQ=255)                                                                  ccGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAATTTTTTTTCTTAAAAAAAAGAAAAATTTACAGAAAAAAAAAAAAAAAAAACAGCGGgcg                                                                                 >  2:673243/1‑151 (MQ=255)                                                                     cAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAAATTTTTTTCTTTAAAAACAAAAAAACTTACAGaaaaaaaaaaaaaaaaaaccacgggcgc                                                                                >  2:678677/1‑135 (MQ=255)                                                                      aaTAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGGGGGAATAAATTGCTTGGCTTTAAAAAAAAAAAAATTGACAGAAAAAAGAAAAAAAAAAACAGCGGGGGCCgg                                                                             >  1:303236/1‑151 (MQ=255)                                                                                cGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGCAAAAAATTGCTTTTTTTTAAAAAAAGAAAAATTTACAGAAAAAATAAAAAAAAAAACACCGGGGGGTGGGTCtt                                                                        >  1:278214/1‑146 (MQ=255)                                                                                 ggATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGAc                                                                  <  1:271178/151‑1 (MQ=255)                                                                                      aGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTa                                                              <  1:425010/150‑1 (MQ=255)                                                                                      aGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAAATTATTGTGTTAAAAAAAAAAAAAAATGTAAGAAAAAAAAAAAAAAAAAACAGCGGGGGCgggggct                                                                         >  2:244926/1‑135 (MQ=255)                                                                                            tGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAATTGCTTTACTTAACAAAAAGAAAAATTTACAGAAAAAAAAAAAAAAAAGCCCGCGGGGGCCGGCTCTTTTAGACGCCaaaat                                                          >  1:236987/1‑146 (MQ=255)                                                                                               gcgTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGc                                                    <  1:158408/151‑1 (MQ=255)                                                                                                  tAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGGAAATAAAATTGTTTAATTAAAAAAAAAAAAAATTGACAGAAAAAAAAAAAAAAAAAACAACGGGGGGCGGCTCCTTGAGAAGCtaaaataaaa                                                      >  2:80816/1‑146 (MQ=255)                                                                                                   aaaTGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGc                                                <  1:415409/151‑1 (MQ=255)                                                                                                   aaaTGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAATTTCTTTACTTTAAAAACAAAAAAATTTACAGAAAAAATAAAAAAAAAAACAACCGGGGCCGGCGCCTTGAGACGCtaaaataaaaagtgg                                                 >  1:896257/1‑145 (MQ=255)                                                                                                    aaTGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAATAAAATTGTTTACTTTAAAAAAAAAAAACATGATAGAAAAGAAAAAAAAAAAAACAGAGGGGGCGGGGTCTTTAAGACGCTAAATTaaaaaatgggg                                               >  2:907762/1‑144 (MQ=255)                                                                                                     aTGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGt                                              <  2:378662/151‑1 (MQ=255)                                                                                                       gTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGtt                                             <  1:172883/150‑1 (MQ=255)                                                                                                       gTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGGAAAAAAAGTTCTTTTTTTAATAAACAAAAAACTTTTTAAGAAAAAAAAAAAAAAAGCCAACCGGGGCTGGGGCTTTAAGACACTCAATTAGAAACt                                                   >  1:298442/1‑144 (MQ=255)                                                                                                           cAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAAAATGCTTGAATTAAAAAAAAGAAAAATTTATAGAAAAAAAAAAAAAAAAAGCAGCGGGCGCTGGGCCTTTGAAACGCTAAAATAGAAACGGGCGGTAcgc                                         >  1:635497/1‑150 (MQ=255)                                                                                                              tGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTTCTTTACTTTACAAAAAAATAACTTGACAGAAAAAATAAAAAAAAAAACAGCGGGGGCTGGGTCTTGAAGAAGCTAAATTAAAAAATGGGGTTACGCgg                                       >  1:838129/1‑149 (MQ=255)                                                                                                                tAATATTCCGTAACAGGATGATCGTTATGGCGGGGGTGTAAATAAAATTGTTTTCTTTAAAAAAAAAAAAATTTAAAGAAAAAAAAAAAAAAAAAACAACGGGGGCCGGCCCTTTTAAAAGCCAAATTaaaaaatgggg                                               >  2:240146/1‑132 (MQ=255)                                                                                                                   tatTCCGTAACAGGATGATCGTTATGGCGGGGGTGCAAAAAGAATGCTTGACTTTAAAAAAAAAAAAAATTACAGAAAAAATAAAAAAAAAAACAGCGGGGGCCGGCGCTTGAAGACGCCAAATTATAAAATGGCGGTACGCGGAGGACgg                                >  1:63033/1‑150 (MQ=255)                                                                                                                    atTCCGTAACAGGATGATCGTTATGGCGGGGGTGCCAAAAAAATTCTTTACTTTACAAAAAAATAAATTGGCAGAAAAAAAAAAAAAAAAGACAGCGGGCGCTGGCTCTTGAAGAAGCTAAATTAAAAAAAGGCGGTAAGCGGAGGACggg                               >  2:686343/1‑149 (MQ=255)                                                                                                                     ttCCGTAACAGGATGATCGTTATGGCGGGGGTGCCAAAAGAATTCTTTTATTTAAAAAAAAAAAAATTGACAGAAAAGATAAAAAAAAAAGCAGCGGGGGCTGGCGCTTGTAGAAGCTAAATTAAAAACGGGGGGTACGCGGAGTAAGTgg                              >  1:808079/1‑151 (MQ=255)                                                                                                                         gTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAAc                          <  2:195683/151‑1 (MQ=255)                                                                                                                           aaCAGGATGATCGTTATGGCGGGGTTGGAAATAAATTTCTTTACTTAACAAACAAATAAATTGACAGAAAAGAAAAAAAAAAAAACAGCGGGGGCTGGCTCTTTAAGACGCCAAAATAAAAAATGGCGGTACCCCGAGGACGgggggaagg                        >  1:170172/1‑146 (MQ=255)                                                                                                                            aCAGGATGATCGTTATGGCGGGGGTGGAAAAAAATTGTTTTTCTTAACAAACAAATAAATTTATAGAAAAAATAAAAAAAAAAACAGCGGGGGCCGGCTCTTGTAGAAGCTAAAATAGAAAAAGGCGGTTCGCGGAGTAAGgggggaagg                        >  2:618743/1‑145 (MQ=255)                                                                                                                                   gatCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAatcacat                <  1:603563/151‑1 (MQ=255)                                                                                                                                       gTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCacg            <  1:628668/151‑1 (MQ=255)                                                                                                                                       gTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCacg            <  1:403514/151‑1 (MQ=255)                                                                                                                                           tGGCGGGGTTGCAAATAGATTGCTTGACTTAAAAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCacgta          >  2:807853/1‑149 (MQ=255)                                                                                                                                               ggggTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGtttt    <  2:684988/151‑1 (MQ=255)                                                                                                                                                 ggTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGc  >  1:689044/1‑151 (MQ=255)                                                                                                                                                   |                                                                                                                                                     TTTCAGACATCCAGAATGCCAAAAAATAGTATGAAAATTGTGCTATTAGCTAAGAAAAAACTAATCCGCAATAAGAATGCGGATTAGTTTTTGCGCGTAAATGTTGCAATGTAATATTCCGTAACAGGATGATCGTTATGGCGGGGTTGCAAATAGATTGCTTGACTTAACAAACAGATAACTTGACAGAAAAGATAAAAAAAGAGCCAGCGGGCGCTGGCTCTTGAAGACGCTAAATTAGAAGCTGGCGTTACGCGGAGTACGTGGGAACGGAATCACATCACGTACGTTTTGC  >  NC_000913/987348‑987642

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑