Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	445,558	0	A	C	22.5%	88.0 / 11.5	40	V370G (GTA→GGA)	yajR	putative major facilitator superfamily transport protein YajR
Reads supporting (aligned to +/- strand):  ref base A (22/9);  new base C (0/9);  total (22/18)
Fisher's exact test for biased strand distribution p-value = 1.78e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

ACGCACTTTTAACGCCTCGTTTGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCTTTACTGATAAGTGAG  >  NC_000913/445425‑445695                                                                                                                                      |                                                                                                                                           aCGCACTTTTAACGCCTCGTTTGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCt                                                                                                                                      <  1:794779/140‑1 (MQ=255)  cGCACTTTTAACGCCTCGTTTGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTg                                                                                                                                     <  1:748383/140‑1 (MQ=255)             cGCCTCGTTTGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑Ca                                                                                                                         <  1:407236/140‑1 (MQ=255)              gCCTCGTTTGCGGGAATGTTCGCCGGGATTTCAATGCGCAAACTGCAGACATCGGGAAGTGCTTTCATGGTTCTGGCGACTGTCAGCCACACTGCGGCGAGGATTGCGCGAGCTAGAAATACCACCTGACCGTCAAA‑CAt                                                                                                                        <  2:403940/140‑1 (MQ=255)              gCCTCGTTTGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CAt                                                                                                                        <  2:418426/140‑1 (MQ=255)                 tCGTTTGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTTATGGGACTGGCGGCTGTCAGCCACACCGCGGGCCGCATTGCGCCAGCGGGAAAAACCCCCCGACCGTCAAA‑CATGcc                                                                                                                     >  2:827791/1‑140 (MQ=255)                   gTTTGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAAAACCCCCTGACCGTCAAA‑AATGCCGt                                                                                                                   >  1:115929/1‑140 (MQ=255)                      tGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTaa                                                                                                                <  2:1342267/140‑1 (MQ=255)                           caattgtCGCCGGGATTTAAATCCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGCCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAg                                                                                                           <  2:533310/134‑1 (MQ=255)                                 tCGCCGGGATTTTAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGccc                                                                                                     <  2:943249/140‑1 (MQ=255)                                                  cgaaaaCTGCTGACATACGGGGGTTCTTTCATGGTACGGGCGATTGTCAGCCACCCTGCGGCCAGCATTGCGCAAGCGAAAAATCCCCCCTGACCTTAAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATcgc                                                                                    <  2:716783/137‑1 (MQ=255)                                                  cccAAACTGCTGACATCGGGCGTTTTTTTCAGGGTACGGGCGACTGCCAGCCCCACTGCGGCCAGCATTGCGCCAGGGAGAAATCCCCCCTGACCGTAAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATcgc                                                                                    <  2:322731/138‑1 (MQ=255)                                                      aaCTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGGCAGCATTGCGCCCGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCCCCCCGCGGACCGCCAAAcgccacc                                                                                >  2:718083/1‑139 (MQ=255)                                                                   cggcggTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCCGCATTGCGCCAGCGAGAAATACCCCCCGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAActggc                                                                   >  2:1144101/1‑140 (MQ=255)                                                                     gcggTTCTTTTATGGGACTGGCGACTGTCAGCCACACTGCGGCCCGCATTGCGCCAGCGAGAAAAACCCCCCGACCGTCAAA‑CAAGCCGTTAATCCAGCCGCCCCGCGAACCGCCCATCGCCACGCCAAGAAAatggctg                                                                 >  2:1077347/1‑140 (MQ=255)                                                                               cATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATCCCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTaaa                                                       <  1:718083/140‑1 (MQ=255)                                                                                   gTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGCCCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACAcc                                                   <  2:1067493/140‑1 (MQ=255)                                                                                     aCTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCa                                                 >  1:1322300/1‑140 (MQ=255)                                                                                     aCTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCa                                                 >  2:590700/1‑140 (MQ=255)                                                                                     aCTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCa                                                 >  2:1230715/1‑140 (MQ=255)                                                                                      cTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCG‑CCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATc                                               >  1:572046/1‑140 (MQ=255)                                                                                        ggCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCg                                              >  1:561378/1‑140 (MQ=255)                                                                                         gCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGc                                             >  2:1087008/1‑140 (MQ=255)                                                                                          cGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGcc                                            >  1:801605/1‑140 (MQ=255)                                                                                              tGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGTCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTAc                                        >  1:1099677/1‑140 (MQ=255)                                                                                              tGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTAc                                        >  2:1328123/1‑140 (MQ=255)                                                                                              tGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTAc                                        >  2:94625/1‑140 (MQ=255)                                                                                              tGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTAc                                        >  1:981114/1‑140 (MQ=255)                                                                                              tGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTAc                                        >  1:855374/1‑140 (MQ=255)                                                                                              tGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTAc                                        >  1:1240408/1‑140 (MQ=255)                                                                                                     cacaCGGCGGCCAGCATTGCGCCAGCGAAAAATCCCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTa                                 <  1:1123674/140‑1 (MQ=255)                                                                                                       cacTGCGGCCAGCATTGCGCCAGCGAGAAATCCCCCCTGACCGTAAAA‑AATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAAc                               <  1:1343131/140‑1 (MQ=255)                                                                                                       cacTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAAc                               >  1:787838/1‑140 (MQ=255)                                                                                                         cTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACct                             <  2:787838/140‑1 (MQ=255)                                                                                                          tGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGGGTAAACACCCATCGCCGTACCTTTGTAACctg                            >  1:322716/1‑140 (MQ=255)                                                                                                              gCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTgg                        >  1:1405463/1‑140 (MQ=255)                                                                                                              gCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTgg                        >  1:259197/1‑140 (MQ=255)                                                                                                              gCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTgg                        >  1:44056/1‑140 (MQ=255)                                                                                                              gCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGACAAGAAACTGGCTGGTGGAGCAAACACCCATCGCCGTACCTTTGTAACCTGCTgg                        >  1:674123/1‑140 (MQ=255)                                                                                                                 aGCATTGCGCCAGCGAGAAATCCCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGa                     <  2:72488/140‑1 (MQ=255)                                                                                                                 aGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGa                     >  1:1100976/1‑140 (MQ=255)                                                                                                                 aGCATTGCGCCAGCGAAAAATCCCCCCTGCCCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGa                     <  1:1077347/140‑1 (MQ=255)                                                                                                                 aGCATGGCGCCGGCGAAAAATCCCCCCGGCCCGTAAAC‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGa                     <  2:1100976/140‑1 (MQ=255)                                                                                                                  gCATTGCGCCAGAGAAAAATCCCCCCTGACCGTAAAA‑CATGCCGTTAACCCAGCCGCCCAGCAAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGAc                    <  2:801605/140‑1 (MQ=255)                                                                                                                  gCATTGCCCAAGCGA‑AAAACCCCCCCGCCCGCCAAACCATCCCGTTAACCCAGCCGCCCGCCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACCCCCATCGCCGTACCTTTGTAACCTGCTGGCGAc                    <  2:855374/140‑1 (MQ=255)                                                                                                                  cctttGCGCCAGCGAAAAATCCCCCCCTACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGAc                    <  2:561378/137‑1 (MQ=255)                                                                                                                    aTTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGActc                  >  1:727333/1‑140 (MQ=255)                                                                                                                     ttGCGCCAGCGAGAAATCCCCCCTGCCCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGActct                 <  1:1144101/140‑1 (MQ=255)                                                                                                                     ttGCGCCAGCGAGAAATCCCCCCTGCCCGTAAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGActct                 <  2:921043/140‑1 (MQ=255)                                                                                                                      tGCGCCAGCGAGAAATCCCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCtt                <  1:590700/140‑1 (MQ=255)                                                                                                                       gcgcCAGCGAGAAATCCCCCCTGCCCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCttt               <  1:827791/140‑1 (MQ=255)                                                                                                                       gcgcCAGCGAGAAATCCCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCttt               <  1:1328123/140‑1 (MQ=255)                                                                                                                       gcgcCAGCGACAAATCCCCCCGGACCTTAAAA‑CATGCCTTTAACCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCttt               <  2:1322300/140‑1 (MQ=255)                                                                                                                       gcgcCAGCGAAAAATCCCCCCTGCCCGTAAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCttt               <  2:1240408/140‑1 (MQ=255)                                                                                                                           cAGCGAGAAATCCCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCTTTACTg           <  1:94625/140‑1 (MQ=255)                                                                                                                            aGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCTTTACTGa          <  1:1230715/140‑1 (MQ=255)                                                                                                                             acagaaaaTCCCCCCGGCCCGTAAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCTTTACTGAt         <  2:226708/135‑1 (MQ=255)                                                                                                                                    aTACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCTTTACTGATAAGTGAg  <  2:259197/140‑1 (MQ=255)                                                                                                                                      |                                                                                                                                           ACGCACTTTTAACGCCTCGTTTGCGGCAATGTTCGCCGGGATTTCAATGCGCAAACTGCTGACATACGGCGGTTCTTTCATGGTACTGGCGACTGTCAGCCACACTGCGGCCAGCATTGCGCCAGCGAGAAATACCCCCTGACCGTCAAA‑CATGCCGTTAATCCAGCCGCCCAGCGAACCGCCAATCGCCACGCCAAGAAACTGGCTGGTGGAGTAAACACCCATCGCCGTACCTTTGTAACCTGCTGGCGACTCTTTACTGATAAGTGAG  >  NC_000913/445425‑445695

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑