Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,337,723	0	A	C	42.6%	80.5 / 17.3	56	G566G (GGT→GGG)	gyrA	DNA gyrase (type II topoisomerase), subunit A
Reads supporting (aligned to +/- strand):  ref base A (25/6);  new base C (0/23);  total (25/31)
Fisher's exact test for biased strand distribution p-value = 4.99e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGCGCGCCACGAGTGGCTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTGCGCTGTTGGCGGTGATTTCAGTA  >  NC_000913/2337577‑2337867                                                                                                                                                   |                                                                                                                                                 cgcgcgcCACGAGTGGCTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCtt                                                                                                                                              <  2:261315/151‑1 (MQ=255)  gcgcgcCACGAGTGGCTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCttt                                                                                                                                             <  2:1060328/151‑1 (MQ=255)    gcgcCACGAGTGGCTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTcc                                                                                                                                           >  2:1094110/1‑151 (MQ=255)       ccACGAGTGGCTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGc                                                                                                                                        >  2:963793/1‑151 (MQ=255)        cACGAGTGGCTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGcc                                                                                                                                       >  1:896698/1‑151 (MQ=255)           gAGTGGCTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCacg                                                                                                                                    >  2:153316/1‑151 (MQ=255)                 cTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTg                                                                                                                              >  1:514715/1‑151 (MQ=255)                      ggaatcagATAAACTTTCATAGAATAGACGCGCCCACGGCTGGAGAAGCAAAGAATAGGGTCGTGGGTTTGCCCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATCCGTGCGGAATTTTTCCCTTCCCCGCCACGACGCTGCGCtt                                                                                                                         <  1:409107/144‑1 (MQ=255)                         aaCTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGt                                                                                                                      >  1:288351/1‑151 (MQ=255)                            tGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTAtt                                                                                                                   >  2:779662/1‑151 (MQ=255)                              aTAAACTTTCATCGAAAAGCCGCGACCCCGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTCCGCCACCAGCAGTCGGTCGAAAAAGTCTTCTTCTTTAATTCGTGCGGCATTTTTCCCTTCCCCGCCACGACGCTGCGCTTCGTATTc                                                                                                                  <  1:714776/150‑1 (MQ=255)                               tAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTc                                                                                                                  >  2:1180914/1‑149 (MQ=255)                                aaaTTTTCTTCGAATAGACGCGCCCCCGGCTGGAGAAGCACAGAATAGGGTCGTGGGTTTCCGCCACCAGCAGTCGTGCGATAAAGTCTTCTTTTTTAATCCGTGGGGAAGATTTCCTTTTCCCGCCACGACGCTGCGCTTCGTATTCa                                                                                                                 <  1:953785/149‑1 (MQ=255)                                aaaCTTTCATCGAATAGACGCGACCGCGGCTGGAAAAGCAAAGAATATGGTCGTGAGTTTTCGCCCCCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGAAGATTTCCTTTTCCCGCCACGACGCTGCGCTTCGTATTCAg                                                                                                                <  2:990691/150‑1 (MQ=255)                                            aaTAGCCGCGCCCAGGGGTGGAGAAGCACAGAATAGGGTCGTGAGTGTCCGCCCCCAGCAGTCGTTCGATAAAGTTTTTTTCTTTAATACGTGCGGAAATTTTCCCTTCCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGc                                                                                                        <  1:24250/146‑1 (MQ=255)                                            aaTAGACGCGACCACGGCGGGAAAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGAAAAAGTCTTCTTCTTTAATACGGGCGGCAGATTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCt                                                                                                       <  2:310692/147‑1 (MQ=255)                                                     gACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGt                                                                                           >  1:489795/1‑150 (MQ=255)                                                        cACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGcc                                                                                       >  1:1114178/1‑151 (MQ=255)                                                           ggCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAATTCTTCTTCTTTAATCCGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTg                                                                                    <  2:584322/151‑1 (MQ=255)                                                             cTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTgg                                                                                   >  1:1173369/1‑150 (MQ=255)                                                               ggAGAAGCAAAGAATATGGTCGTGAGTGTCCGCCACCAGCAGTCGGTCGATAAGGTCTTCTTTTTTAATACGTGCGGAAGATTTCCCTTTCCCGCCACGACGCTGTGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTg                                                                                 <  1:764286/150‑1 (MQ=255)                                                                 agagGCACAGAATATGGTCGTGAGTGTCCCCCCCCAGCAGTCGGTCAATAAAGTTTTTTTTTTTAATGCGTGCGGAAGTTTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTgag                                                                               <  1:1092174/150‑1 (MQ=255)                                                                   aaGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTCCCTTCCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTg                                                                                 <  1:1186508/146‑1 (MQ=255)                                                                   aaGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTgag                                                                               >  1:609757/1‑148 (MQ=255)                                                                   aaGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCAATAAAGTCTTCTTCTTTAATCCGTGCGGCAGATTTCCCTTCCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTgaga                                                                              <  2:680061/149‑1 (MQ=255)                                                                   aaGCACAGAATAGGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAATTCTTCTTTTTTAATACGTGGGGCAGATTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTgagag                                                                             <  2:657718/150‑1 (MQ=255)                                                                    aGCACAAAATTTGGTCGTGAGTGTTCGCCCCCAGCAGTCGTTGGAAAAAGTCTTTTTTTTTAATGCGTGGGGAAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTga                                                                                <  1:1121625/146‑1 (MQ=255)                                                                       acaGAATGTGGTCGTGAGTGTTCCCCACCAGCAGTCGGTCGATAAAGTCTTCTTTTTTAATACGGGCGGAAGATTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGagagag                                                                           <  2:830753/148‑1 (MQ=255)                                                                         aaattatGGTCGGGAGTGTTCCCCCCCAGGATTCGTTGAATAAAGTCTTTTTCTTTAATCCGTGCGGAAATTTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCa                                                                      <  1:82645/147‑1 (MQ=255)                                                                         aGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTc                                                                       >  1:982241/1‑150 (MQ=255)                                                                          gAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCAc                                                                     >  2:851276/1‑151 (MQ=255)                                                                                         tgtTCCCCCCCAGCGGTCGGTCAAAAAAGTTTTCTTTTTTAATCCGTGCGGCAGATTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCt                                                       <  1:1159903/150‑1 (MQ=255)                                                                                          gtTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTgg                                                     >  1:966428/1‑151 (MQ=255)                                                                                           ttCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTg                                                      <  2:663235/149‑1 (MQ=255)                                                                                             cccccccaGCGCTCGGTCGATAAATTCTTCTTCTTAAATGCGTGCGAGAGATTTTCCTTCCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGt                                                   <  1:758444/145‑1 (MQ=255)                                                                                             cGCCCCCAGCGGTGGGTCGAAAAATTCTTCTTTTTTAATGCGTGGGGAATTTTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTg                                                  <  1:582190/151‑1 (MQ=255)                                                                                               ccaccaGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGAt                                                >  2:363334/1‑151 (MQ=255)                                                                                                 accaGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATc                                               >  2:569282/1‑150 (MQ=255)                                                                                                  ccaccggtcggtcaAAAAAGTCTTCTTTTTAAATACGTGCGGAAAATTTCCCTTCCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATc                                               <  1:142309/143‑1 (MQ=255)                                                                                                     gcagTCGGTCGATAAAGTCTTCTTTTTTAATACGTGCGGCAGATTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGa                                            <  2:729009/149‑1 (MQ=255)                                                                                                      cagTCGGTCAATAAATTCTTTTTTTTTAATCCGTGCGGCAGATTTTCTTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCt                                         <  1:29855/151‑1 (MQ=255)                                                                                                           gttcgATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCa                                     <  2:1068730/148‑1 (MQ=255)                                                                                                                aTAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTg                                >  2:886226/1‑150 (MQ=255)                                                                                                                 tAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGAt                              >  1:1091303/1‑151 (MQ=255)                                                                                                                  aaaGTCTTCTTCTTTAATGCGGGCGGCAGATTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATg                             <  2:1079102/151‑1 (MQ=255)                                                                                                                    aGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTc                           >  2:809118/1‑151 (MQ=255)                                                                                                                       cttcttcttTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTgc                        >  2:149148/1‑151 (MQ=255)                                                                                                                        ttcttcttTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTgcg                       >  2:711854/1‑151 (MQ=255)                                                                                                                         tctttttTAATCCGTGCGGCAGTTTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTgcg                       <  2:994506/150‑1 (MQ=255)                                                                                                                         tcttcttTAATCCGTGCGGCAGTTTTCCCTTCCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTgcg                       <  2:816378/150‑1 (MQ=255)                                                                                                                         tcttcttTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTgcgc                      >  2:680759/1‑151 (MQ=255)                                                                                                                           tttttaaaTACGGGCGGCATATTTCCCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTg                         <  1:307943/140‑1 (MQ=255)                                                                                                                                  aTACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTGCGCTGTTGGCgg             >  2:283200/1‑151 (MQ=255)                                                                                                                                      gTGCGGAAAATTTACCTTCCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTGCGCTGTTGGCGGTGa          <  1:149745/150‑1 (MQ=255)                                                                                                                                             aGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTGCGCTGTTGGCGGTGATTTCAGt   >  2:1192358/1‑150 (MQ=255)                                                                                                                                                tttCCCTTCCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTGCGCTGTTGGCGGTGATTTCAGTa  <  1:100204/148‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                 CGCGCGCCACGAGTGGCTTCCGGCAACTGATAAACTTTCATCGAATAGACGCGACCACGGCTGGAGAAGCACAGAATATGGTCGTGAGTGTTCGCCACCAGCAGTCGGTCGATAAAGTCTTCTTCTTTAATACGTGCGGCAGATTTACCTTTCCCGCCACGACGCTGCGCTTCGTATTCAGAAAGCGGCTGATACTTAACGTAGCCCTGGTGAGAGAGCGTCACGACCACATCTTCCTGGGTGATCAGATCTTCCAGGTTGATGTCTGCGCTGTTGGCGGTGATTTCAGTA  >  NC_000913/2337577‑2337867

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: ‑