Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,312,227	0	A	G	39.3%	102.5 / 10.6	56	V7A (GTC→GCC)	yciA	acyl‑CoA esterase
Reads supporting (aligned to +/- strand):  ref base A (11/23);  new base G (22/0);  total (33/23)
Fisher's exact test for biased strand distribution p-value = 1.13e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCTGCGGCATGTG  >  NC_000913/1312078‑1312377                                                                                                                                                      |                                                                                                                                                       caGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGa                                                                                                                                                        <  1:326859/150‑1 (MQ=255)     cgcTACGCGACCGTCTGCAATTTATTTTGCCAGAATAGCGCCGCCAATGGCCATTTGGGGCATTAGCCAACCACCAAATATGTCACCATTGGCATTGGTATGGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGtt                                                                                                                                                    <  2:848574/148‑1 (MQ=255)      aCTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCCTGGCTAAAGAACGTAAAACAAAATCGCCCCGAGGGGCggttt                                                                                                                                                  >  2:110320/1‑147 (MQ=255)         aCGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCCAAAATAAGGAAAAAAAAAAAGCCCCGAGGGGCGGTTtgt                                                                                                                                                >  2:241925/1‑150 (MQ=255)           gcgACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCGTGGGTAAAACAAAAAAAACAAAATAACCCCGAGGGGCGTTATGtgtt                                                                                                                                             >  1:756646/1‑151 (MQ=255)            cgACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCAAGGGTAAAAGAAGGAAAAAAAAATAGCCCCCGGGGGAGGTATGtgtt                                                                                                                                             >  2:594528/1‑150 (MQ=255)             gACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGtgttgt                                                                                                                                           <  2:589956/151‑1 (MQ=255)               ccGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAATAAGCTAAAAAAAAAAGCCCTGAGGGGCGGTTTGtgttgt                                                                                                                                           >  2:894311/1‑149 (MQ=255)                cGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGa                                                                                                                                        <  1:706433/151‑1 (MQ=255)                      cAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCAAGGCTAAAAAAAGTAAAAAAAAAACGCCCCGAGGGGCGGTATGTGTTGTAGaaa                                                                                                                                      >  2:18385/1‑145 (MQ=255)                         tttCTTTTGTCAGGATGGGGTCGCCAATATGCCTTTGTTGCAATAACCAACCACCAAAGATGTCACCATTTGCATTGGTATCGGCGGGAATGGCTAAAGTACGTAAAAAAAGATCGTGCTGAGGGACGTTATGTGTTGTAGACATGGTa                                                                                                                                 <  2:63709/149‑1 (MQ=255)                          ttCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTaaa                                                                                                                               <  2:169584/150‑1 (MQ=255)                                    aGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAAAAAGTAAAACAAGAACGCCCCGAGGGGCGGTATTTGTTGTTGAAAAGGGAAAACCCACtt                                                                                                                       >  2:783424/1‑148 (MQ=255)                                    aGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCCAAAAGAAGTAAAAAAAAAACGCCCCGAGGGGCGGTTTGTGTTGTTGAAATGGTAAAAACGACTTaa                                                                                                                     >  2:955616/1‑150 (MQ=255)                                     gAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAAAACGTGAAAAAAAAACGCCCTCAGGGGCGTTGTGGGTTGTAGAAATGGGAAAAACCACTTaaa                                                                                                                    >  2:1029289/1‑150 (MQ=255)                                         aGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGa                                                                                                                <  2:432741/150‑1 (MQ=255)                                         aGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGa                                                                                                                <  2:636130/150‑1 (MQ=255)                                            gccgccAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAAt                                                                                                            <  2:958598/151‑1 (MQ=255)                                                 cAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGGTAAAAGACGTAAAAAAAAATCGCCCCGAGGGGCGGTATTTGTTGTTGAAATGGGAAAAACGACTTAAAAAGaaaa                                                                                                             >  2:67132/1‑145 (MQ=255)                                                     atCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGGATTGCTCAAGTACGTTAAAAAAAAACACCCCTAGGGGGGGTATTTGTTGTAGGCATGGGAAAAACAACCTAAAAAAAAAAAcaca                                                                                                        >  1:218253/1‑146 (MQ=255)                                                     atCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGgcgc                                                                                                   <  2:423391/151‑1 (MQ=255)                                                         aTTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATg                                                                                               <  2:167844/151‑1 (MQ=255)                                                          tttGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAAGACGTAAAAAAAAAACGCCCTGAGGGGCGGTGTGTGTTGTAGACATGGGAAAAACGACTTAAAAAGAAAAACACAGGCGCGATg                                                                                               >  2:73188/1‑150 (MQ=255)                                                            tgtgACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGAACGTAAAAAAAAAACGCCCCGAGGGGCGTTATGTGTTGTTGACAAGGGAAAAACGACCTAAAAAGAAAAAAACAGGGGCGATg                                                                                               >  2:663184/1‑148 (MQ=255)                                                                aCATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCTTGGCTAAAAAAAGAAAAAAAAAAAAGCCCTGACGGGCGGTTTGTGTTGTTGGCAAGGTAAAAACGAATTAAAAAGAAAAACACAAgc                                                                                                     >  1:981854/1‑138 (MQ=255)                                                                  aTTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGGTAAAGTACGTAAAACAAGATCGCCCTGGGGGGGGGTATGTGTTGTAGACAATGGAAAAACGACTTAAAAAGAAAATCACAGGCGCGGTGCTACTAt                                                                                        >  2:1133473/1‑149 (MQ=255)                                                                  aTTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCAAGGCTAAAAAACGGAAAACAAAAAAGCCCCGGGGGGCGGTTTGTGTTGTAGACATGGGAAAACCGACTTAAAAAGAAAAAAACAGGCGCGGTGctact                                                                                          >  2:835916/1‑147 (MQ=255)                                                                     aaccaaccACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAACCCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGAttt                                                                                   <  1:1148767/151‑1 (MQ=255)                                                                      accaaccaCCAAAGATGTCACCATTGGCATTGGTATCGGCGGGGATGGCTAAAGAAAGGAAAAAAAAATCGCCCTTAGGGGCGGTTTGTGTTGTTGACATGGGAAAAACGACTTAAAAAGAAAAACACAGGGGCGATGCTACTATGAtttt                                                                                  >  2:36077/1‑151 (MQ=255)                                                                         aaccaCCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGAACGTAAAAAAAAAACGCCCCGGGGGGCGGTATGTGTTTTTGACAAGGTAAAAACCACTTAAAAAGAAAAAAACAGGCGCGGTGCTACTATGAtttt                                                                                  >  2:763245/1‑148 (MQ=255)                                                                            caccaAAGATGTCACCATTGGCATTGGTATCGGCGGGGATGGCTAAAAAAAGTAAAAAAAGAACCCCCTGAGGGGCGGTTTGGGTTGTTGAAATGGTAAAAACGACTTAAAAAGAAAAACACCAGGGCGAGGCTACTATTAtttt                                                                                  >  1:461620/1‑145 (MQ=255)                                                                            caccaAAGATGTCACCATTGGCATTGGTATCGGCGGGCGTTGCCACCGCACATAAAAAAAAAAAGCCCTGCGGGGGGGTTTGTGGTGTTGACACGGTGAAACCGACCTCAAAAAAAAAACACACGCGGGATGCTAATATGAtttt                                                                                  >  1:1041169/1‑145 (MQ=255)                                                                               caAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGGTAAAAAAAGTAAAAAAAGATCGCCCCGCGGGGGGGTATTTGTTGTTGACATGGTAAAAACCACTTAAAAAGAAAATCACAGGCGCGATGCTACTATGATTTTTCTtagggg                                                                         >  2:439609/1‑149 (MQ=255)                                                                                aaaGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGgaga                                                                        <  1:447213/151‑1 (MQ=255)                                                                                aaaGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAAAACGTAAAACAAAAACGCCCTGAGGGGCGGTATGTGTTGTTGACATGGGAAAAACGACTTAAAAAGAAAAATAAAGGCGCGAAGCTACTATGATTTTTCTtagg                                                                           >  2:748350/1‑148 (MQ=255)                                                                                 aaGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGaa                                                                       <  1:895100/151‑1 (MQ=255)                                                                                            attggcattggTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATa                                                            <  1:167179/151‑1 (MQ=255)                                                                                                gcattggTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAgc                                                        <  1:439949/151‑1 (MQ=255)                                                                                                                 cATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACt                                       >  2:144821/1‑151 (MQ=255)                                                                                                                  aTGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTg                                      >  1:52712/1‑151 (MQ=255)                                                                                                                        aaaGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTc                                >  2:1084810/1‑151 (MQ=255)                                                                                                                             aCGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGtt                           >  2:1003461/1‑151 (MQ=255)                                                                                                                                 aaaaCAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAgg                        <  2:926639/150‑1 (MQ=255)                                                                                                                                 aaaaCAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAgg                        >  1:407581/1‑150 (MQ=255)                                                                                                                                 aaaaCAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAgg                        <  2:1156522/150‑1 (MQ=255)                                                                                                                                    aCAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGAttt                    <  2:126366/151‑1 (MQ=255)                                                                                                                                      aaGATCGCCCTGAGGGACTTTATGTGTTGTAGACATGTTAAAACCGACTTAAAAGGAAAATCACATGCGCGATGCTACTATGATTTTCCTGATTATAACAAATAATATACAGCTCCAGCCCCGAAGGACTGGCATTCTTTTTACTATTTAt                  <  1:93681/151‑1 (MQ=255)                                                                                                                                      aaGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTAt                  <  2:294696/151‑1 (MQ=255)                                                                                                                                      aaGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTAt                  >  1:917778/1‑151 (MQ=255)                                                                                                                                           cGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTcc             <  1:1114384/151‑1 (MQ=255)                                                                                                                                            gCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCt            >  1:835597/1‑151 (MQ=255)                                                                                                                                            gCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCt            <  2:259944/151‑1 (MQ=255)                                                                                                                                             cccTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCTg           <  2:822574/151‑1 (MQ=255)                                                                                                                                              ccTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCTGc          >  2:925049/1‑151 (MQ=255)                                                                                                                                               cTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCTGCg         >  1:341200/1‑151 (MQ=255)                                                                                                                                                tGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCTGCgg        >  2:923294/1‑151 (MQ=255)                                                                                                                                                 gAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCTGCGGc       >  2:1051811/1‑151 (MQ=255)                                                                                                                                                      aCGTTGTGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCTGCGGCAtgtg  <  1:73168/151‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                       CAGTCACTACGCGACCGTGGGCAATTTCTTTTGCCAGAATAGCGCCGCCAATATCCATTTGTGACATTAACCAACCACCAAAGATGTCACCATTGGCATTGGTATCGGCGGGCATGGCTAAAGTACGTAAAACAAGATCGCCCTGAGGGACGTTATGTGTTGTAGACATGGTAAAACCGACTTAAAAGGAAAATCACAGGCGCGATGCTACTATGATTTTCCTGAGGAGAACAGAGGAGATACAGCGCCAGCCCCGAAGGACTGGCAGTCTGGTTAGGATTTATCTTCCTGCGGCATGTG  >  NC_000913/1312078‑1312377

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑