Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,314,215	0	C	T	67.7%	68.1 / 53.7	67	S352N (AGT→AAT)	rhbC	MFS family major facilitator transporter
Reads supporting (aligned to +/- strand):  ref base C (13/8);  new base T (25/19);  total (40/27)
Fisher's exact test for biased strand distribution p-value = 7.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.08e-01
Rejected as consensus: Frequency below/above cutoff threshold.

GATATACCATGATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGACTAAATAACCC  >  CP000730/2314080‑2314351                                                                                                                                        |                                                                                                                                         gATATACCATGATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTGTAACAATGCCAAACACATCTGCACATATACTCGtt                                                                                                                                     >  1:1042662/1‑141 (MQ=255)      aCCATGATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAg                                                                                                                                <  1:206571/141‑1 (MQ=255)       ccATGATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGa                                                                                                                               >  1:339733/1‑141 (MQ=255)       ccATGATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCAAATATAGTCATTAATAGa                                                                                                                               >  1:99669/1‑141 (MQ=255)       ccATGATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAACAAAATTGTCCGTTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGa                                                                                                                               >  1:1002540/1‑141 (MQ=255)        cATGATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGAc                                                                                                                              <  1:701069/141‑1 (MQ=255)           gATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTc                                                                                                                           <  1:566840/141‑1 (MQ=255)           gATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTACCATTATTGAAAAAGTTCTAACACTGCCAAACACATCTGCACATATATTCATTAATAGACTTc                                                                                                                           >  1:930846/1‑141 (MQ=255)                cTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAAt                                                                                                                      >  1:689789/1‑141 (MQ=255)                 tttCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATg                                                                                                                     <  1:597864/141‑1 (MQ=255)                               aaCTTCAACTTTCTATTTATAAAATAGAGTACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTa                                                                                                       >  1:871286/1‑141 (MQ=255)                               aaCTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCCCATATATTCATTAATAGACTTCCCAATGGAATCATACatctt                                                                                                       >  1:43582/1‑140 (MQ=255)                               aaCTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTa                                                                                                       >  1:839596/1‑141 (MQ=255)                                aCTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTAt                                                                                                      <  1:223346/141‑1 (MQ=255)                                       cTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCcatcat                                                                                               >  1:957909/1‑141 (MQ=255)                                         ttCTATTTATAACATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCataa                                                                                             <  1:32553/141‑1 (MQ=255)                                         ttCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCataa                                                                                             <  1:450047/141‑1 (MQ=255)                                           cTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCataata                                                                                           >  1:978750/1‑141 (MQ=255)                                            tATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCataataa                                                                                          >  1:699043/1‑141 (MQ=255)                                                      aTAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTAc                                                                                <  1:229155/141‑1 (MQ=255)                                                         aaaTACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACttt                                                                             <  1:1259227/140‑1 (MQ=255)                                                          aaTACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTa                                                                            >  1:147589/1‑141 (MQ=255)                                                                aTTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGt                                                                      >  1:31130/1‑141 (MQ=255)                                                                aTTGTAATGCATATAGTACTTATTCCCAATATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAGTAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGt                                                                      >  1:887362/1‑141 (MQ=255)                                                                 ttGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACTTATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGtt                                                                     >  1:1277299/1‑141 (MQ=255)                                                                 ttGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACTTCTATCCTTCATAATAATACTCAGTACTTTACCACGtt                                                                     >  1:373855/1‑141 (MQ=255)                                                                   gTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGCCTTCCCAAAGGAACCATACCTCTATCCATCATAATAATACTCACTCCTTTACCCCCTTcc                                                                   >  1:287320/1‑140 (MQ=255)                                                                   gTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTct                                                                   >  1:431194/1‑140 (MQ=255)                                                                         cATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCt                                                             >  1:1197580/1‑141 (MQ=255)                                                                          atatACTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCtt                                                            <  1:348958/141‑1 (MQ=255)                                                                             taGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTaa                                                         >  1:212258/1‑141 (MQ=255)                                                                             taGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTaa                                                         >  1:1300735/1‑141 (MQ=255)                                                                             taGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTaa                                                         >  1:1155055/1‑141 (MQ=255)                                                                             taGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTaa                                                         >  1:1381283/1‑141 (MQ=255)                                                                             taGTACTTATTCCCATTATTGAAAAAGTTCTAAAAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTaa                                                         >  1:610690/1‑141 (MQ=255)                                                                                    tATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCAGTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTGTACCACGTTCATAATCTTTAACattatt                                                  <  1:327917/141‑1 (MQ=255)                                                                                       tCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTg                                               <  1:238920/141‑1 (MQ=255)                                                                                       tCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTg                                               <  1:81879/141‑1 (MQ=255)                                                                                         ccATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTGTCGCTTTCTTAATCTTTAACATTATTTTGaa                                             <  1:1012574/141‑1 (MQ=255)                                                                                         ccATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGaa                                             <  1:1069658/141‑1 (MQ=255)                                                                                         ccATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGaa                                             <  1:465640/141‑1 (MQ=255)                                                                                            ttattGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAAt                                          >  1:1111637/1‑141 (MQ=255)                                                                                            ttattGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAAt                                          >  1:811014/1‑141 (MQ=255)                                                                                            ttattGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAAt                                          >  1:1074100/1‑141 (MQ=255)                                                                                            ttattGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAAAATTATTTTGaaaaa                                          >  1:177548/1‑140 (MQ=255)                                                                                                     aaGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGACTCAAGCCGCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGAt                                 <  1:1358185/141‑1 (MQ=255)                                                                                                     aaGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGAt                                 <  1:1019335/141‑1 (MQ=255)                                                                                                     aaGTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGAt                                 <  1:1029392/141‑1 (MQ=255)                                                                                                       gTTCTAACAATGCCAAACCACTCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACCTTAGTTTTAAAATAAACGCGAttt                               <  1:330421/141‑1 (MQ=255)                                                                                                       gTTCTAACAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGAttt                               <  1:1055799/141‑1 (MQ=255)                                                                                                            aaCAATGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGt                          >  1:553201/1‑141 (MQ=255)                                                                                                                aTGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGt                      >  1:1085530/1‑141 (MQ=255)                                                                                                                 tGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTg                     <  1:195555/141‑1 (MQ=255)                                                                                                                 tGCCAAACACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTg                     <  1:1275597/141‑1 (MQ=255)                                                                                                                     aaaCACATCTGCACATATAAGCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACGTTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCa                 >  1:894292/1‑141 (MQ=255)                                                                                                                      aaCACATCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTATATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTCCGTGCCCAt                >  1:117508/1‑141 (MQ=255)                                                                                                                        cacaTCTGCACATATATTCATTAATAGACTTCCCGATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTg              <  1:565143/141‑1 (MQ=255)                                                                                                                         acaTCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTTCCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGa             >  1:1358502/1‑141 (MQ=255)                                                                                                                         acaTCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGa             >  1:647437/1‑141 (MQ=255)                                                                                                                           aTCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATTACCGCGATTTGTCGTACGTGCCCATTGGCt           >  1:1200272/1‑141 (MQ=255)                                                                                                                           aTCTGCACATATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGACt           >  1:987837/1‑141 (MQ=255)                                                                                                                           aTCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATTAACGCGATTTGTCGTATGTGCCCATTGACt           >  1:404066/1‑141 (MQ=255)                                                                                                                           aTCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGACt           >  1:488588/1‑141 (MQ=255)                                                                                                                           aTCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGACt           >  1:549503/1‑141 (MQ=255)                                                                                                                                  caTATATTCATTAATAGACTTCCCCATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGACTAAATAAc    <  1:282021/141‑1 (MQ=255)                                                                                                                                  caTATATTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGACTAAATAAc    <  1:693383/141‑1 (MQ=255)                                                                                                                                    tataCTCATTAATCGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGACTAAATAAccc  <  1:442978/141‑1 (MQ=255)                                                                                                                                        |                                                                                                                                         GATATACCATGATTACTTTCCTCCAACTTTAACTTCAACTTTCTATTTATAAAATAGAATACCATTGTAATGCATATAGTACTTATTCCCATTATTGAAAAAGTTCTAACAATGCCAAACACATCTGCACATATACTCATTAATAGACTTCCCAATGGAATCATACCTCTATCCATCATAATAATACTCAGTACTTTACCACGTTCATAATCTTTAACATTATTTTGAAAATAAACGCGATTTGTCGTACGTGCCCATTGACTAAATAACCC  >  CP000730/2314080‑2314351

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑