Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,302,658	0	T	G	42.1%	99.9 / 13.3	58	T141P (ACC→CCC)	mdtO	membrane translocase (MDR) of MdtNOP efflux pump, PET family
Reads supporting (aligned to +/- strand):  ref base T (2/31);  new base G (24/0);  total (27/31)
Fisher's exact test for biased strand distribution p-value = 4.32e-14
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGCCTGATGCATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGTATGACCATTTGTAGATCAAAA  >  NC_000913/4302512‑4302804                                                                                                                                                   |                                                                                                                                                   cgcCTGATGCATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGc                                                                                                                                                <  1:876252/151‑1 (MQ=255)    cTGATGCATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTTccc                                                                                                                                              >  1:908751/1‑150 (MQ=255)      gATGCATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGt                                                                                                                                            <  2:315116/150‑1 (MQ=255)      gATGCATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGccc                                                                                                                                              >  2:1028228/1‑148 (MQ=255)       aTGCATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTa                                                                                                                                           >  2:1109079/1‑150 (MQ=255)         gCATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAAt                                                                                                                                        <  2:299010/151‑1 (MQ=255)          cATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATa                                                                                                                                       <  2:1103235/151‑1 (MQ=255)           aTTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAg                                                                                                                                      <  2:430194/151‑1 (MQ=255)            tttGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGGAAATAg                                                                                                                                      >  1:263248/1‑150 (MQ=255)               gCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTGATCAGCAAGGCTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAGGGAGTGACCGt                                                                                                                                            >  1:788615/1‑141 (MQ=255)                 gAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTAAATAGCGACa                                                                                                                                 >  1:83740/1‑150 (MQ=255)                  aaaTGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAAt                                                                                                                               <  1:556202/151‑1 (MQ=255)                    aTGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGTTTGCCCGTAAATAGTGACaa                                                                                                                                >  1:643442/1‑148 (MQ=255)                    aTGGAACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGCAAAAAGAGACaaag                                                                                                                              >  1:383802/1‑148 (MQ=255)                           gACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGTTTGCCCGTGAATAGAGACAAAGGCGACgg                                                                                                                       >  1:476663/1‑150 (MQ=255)                           gACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACAATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTTCCCGGAAAAAGCGACAAAGGCGAc                                                                                                                         >  2:171795/1‑148 (MQ=255)                             cTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTGGCCGGAAATAACGACAAAGGGGACgg                                                                                                                       >  1:1115276/1‑148 (MQ=255)                               gggAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGaa                                                                                                                   <  2:615289/150‑1 (MQ=255)                                   aaCCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCAGGATAGTCGAGCATGGCGGGGAAAGGTTGGCCGGAAAAAACGACAATGGGGCCGGCGaaaa                                                                                                                 >  2:322376/1‑148 (MQ=255)                                       acaGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAg                                                                                                          <  2:520436/151‑1 (MQ=255)                                        caGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTAAATAGGGACAATGGCGACGGGGGAAAAGAACa                                                                                                           >  1:458216/1‑149 (MQ=255)                                          gCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTACGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGccc                                                                                                       <  1:1040523/151‑1 (MQ=255)                                            aCGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTTCCCGTAAATAGCGACAATGGCGCGGGCGAAAAAGAGCAGcccc                                                                                                      >  2:702019/1‑150 (MQ=255)                                                    tAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAAACCAGCCCCCAGCGAAgg                                                                                             >  2:327131/1‑151 (MQ=255)                                                     aaCGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTAAATAGCGACAAAGGCGACGGCGAAAAAAAACAGCCCCAAGCGATggg                                                                                            >  2:973358/1‑151 (MQ=255)                                                         tcatcaGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTTCCCGTAAATAGCGACAATGGCGGCGGCGAAAAAAAACAGCCCCAAACGATggggg                                                                                          >  2:482460/1‑147 (MQ=255)                                                           atcaGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCa                                                                                      <  1:835765/151‑1 (MQ=255)                                                                cAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTTCCCCTAAATAACGACAAAGGCGACGGCGAAAAAAAACAGCCCCCAGCGATGGGGGGGCATCaa                                                                                  >  1:394349/1‑150 (MQ=255)                                                                         aTAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCa                                                                         <  1:1084726/150‑1 (MQ=255)                                                                           agagGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGcc                                                                      <  1:332173/151‑1 (MQ=255)                                                                             agGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCa                                                                    <  2:1086780/151‑1 (MQ=255)                                                                                 caacaaCGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAAGGTTTCCCGTAAATAACGACAAAGGCGGCGGCGAAAAAAACCAGCCCCCAACGATGGGGGCGCCACAAAAACATGCAGccc                                                                     >  2:975836/1‑146 (MQ=255)                                                                                  aacaacGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAgg                                                               <  1:510640/151‑1 (MQ=255)                                                                                   acaacGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGa                                                              <  1:243802/151‑1 (MQ=255)                                                                                        gATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGt                                                         <  2:80172/151‑1 (MQ=255)                                                                                            caccacAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTAAATAACGACAATGGCGACGGCGAAAAAAACCAGCCCCAAGCGATGGGGGCGCATCAAAAAAAAGCAGCCCATCAGGATCGGTCCgg                                                     >  2:297787/1‑151 (MQ=255)                                                                                                acaGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCCGAAATAGCGACAATGGCGACGGGGAAAAAAACCAGCCCCAACCGGTGGGTGCGCACCAAAAAAAAGAAGCCCATCAGGATACGGCCGGCg                                                   >  2:673023/1‑149 (MQ=255)                                                                                                     gTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCa                                            <  1:61391/151‑1 (MQ=255)                                                                                                      ttAATCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAAACCAGCCCCAAGCGATGGGGGCGCATCAAAAAAAAGCAGCCCATCAGGATCGGTCCGGCGATGATCa                                            >  2:529280/1‑150 (MQ=255)                                                                                                      ttAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGGAAATAGCGACAATGGCGACGGCGAAAAAAACCAGCCCCAAGCGGTGGGTGCGCATCAAAAACATGCAGCCCATCAGGGTCGGTCCCGCGATGATCa                                            >  2:226206/1‑150 (MQ=255)                                                                                                       tAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCaa                                           <  1:677301/150‑1 (MQ=255)                                                                                                         aGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCg                                        <  1:512396/151‑1 (MQ=255)                                                                                                             cACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGAt                                     <  1:534957/150‑1 (MQ=255)                                                                                                              aCGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTAAATAACGACAAATGCGACGGCGAAAAAGAGCAGACCCCAGGGAGGGGTGGGCATCCAAAAAATGCAGCCCATCAGGAACGGTCCGGCGATGAACAATCgggac                                    >  1:433068/1‑147 (MQ=255)                                                                                                                  ccACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACgg                               <  2:315364/151‑1 (MQ=255)                                                                                                                   cACTTCCGGATAGTCGAGCATGGCGGGGGAGGGTTGGCCGTAAATAACGACAAAGGCGGCGGGGAAAAAAAACAGCCCCCAACGAAGGGGGCGCATCAAAAAAAAGCAGCCCATCAGGAACGGGCCGGCGATGATCAAACGGATCAAccg                               >  1:914400/1‑148 (MQ=255)                                                                                                                   cACTTCCGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTAAATAGCGACAATGGGGGCGGCGGAAAAGACCAGCCCCCAACGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGGCCGGCGATGATCAAACGGATCAAc                                 >  1:112198/1‑148 (MQ=255)                                                                                                                     cTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGtt                             <  2:556348/150‑1 (MQ=255)                                                                                                                       tCCGGAGAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTc                            <  1:127569/149‑1 (MQ=255)                                                                                                                        ccGGATAGTCGAGCATGGCGGGGAAGGGTTGCCCGTAAATAGGGACAATGGCGACGGCGAAAAAAACCAACCCCAAACGATGGGGGCGCCTCAAAAACAAGCCGCCCATCAGGAACGGTCCCGCGATGATCAATCGGATCAACCGTTCGcc                         >  2:776518/1‑151 (MQ=255)                                                                                                                         cGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCg                        <  1:830573/151‑1 (MQ=255)                                                                                                                          ggATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGt                       <  1:410607/151‑1 (MQ=255)                                                                                                                              aGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGTATGa                   <  2:339071/151‑1 (MQ=255)                                                                                                                                         gCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGTATGACCATTTGTAGa        <  1:482449/151‑1 (MQ=255)                                                                                                                                          cGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGTATGACCATTTGTAGAt       <  2:476673/151‑1 (MQ=255)                                                                                                                                           ggggAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGTATGACCATTTGTAGATc      <  2:1115300/151‑1 (MQ=255)                                                                                                                                            gggAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGTATGACCATTTGTAGATCa     <  2:496910/151‑1 (MQ=255)                                                                                                                                               aaGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGTATGACCATTTGTAGATCaaaa  <  2:291136/151‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                   CGCCTGATGCATTTGCGAAATGGCACGACTGGGAAACCACAGCACGCCGATTAACGTCATCAGCAAGGTTGGATAGAGGCCAACAACGATACACCACAGCGTTAAGCGCACGACCACTTCCGGATAGTCGAGCATGGCGGGGAAGGTTTGCCCGTAAATAGCGACAATGGCGACGGCGAAAAAGACCAGCCCCAAGCGATGGGTGCGCATCAAAAACATGCAGCCCATCAGGATCGGTCCGGCGATGATCAATCGGATCAACGGTTCGCCGTATGACCATTTGTAGATCAAAA  >  NC_000913/4302512‑4302804

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑