Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,403,5970TC50.8% ‑6.2 / 77.6 59intergenic (‑57/+24)PP_1227/PP_1228membrane protein/methyl‑accepting chemotaxis transducer
Reads supporting (aligned to +/- strand):  ref base T (14/15);  new base C (16/14);  total (30/29)
Fisher's exact test for biased strand distribution p-value = 7.97e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TGGCGATGAACAGGGTGGCGGCGATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGTGATTCTGTCACGTCTCGAATGCCGGCCAC  >  NC_002947/1403450‑1403746
                                                                                                                                                   |                                                                                                                                                     
tggCGATGAACAGGGTGGCGGCGATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGc                                                                                                                                                     <  1:1353602/150‑1 (MQ=255)
       gAACAGGGTGGCGGCGATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGaa                                                                                                                                              <  2:1892690/150‑1 (MQ=255)
          cAGGGTGGCGGCGATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAagag                                                                                                                                           >  2:545733/1‑150 (MQ=255)
           aGGGTGGCGGCGATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAAGAgg                                                                                                                                          <  1:545733/150‑1 (MQ=255)
                      gATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAaga                                                                                                                                            <  2:1394408/137‑1 (MQ=255)
                      gATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAaga                                                                                                                                            >  1:1394408/1‑137 (MQ=255)
                      gATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGAaga                                                                                                                                            <  2:1648465/137‑1 (MQ=255)
                      gATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGAaga                                                                                                                                            >  1:1648465/1‑137 (MQ=255)
                          gAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGAAGAGGcc                                                                                                                                        >  1:436099/1‑137 (MQ=255)
                          gAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGAAGAGGcc                                                                                                                                        <  2:436099/137‑1 (MQ=255)
                           aGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGt                                                                                                                                                       >  2:3249094/1‑121 (MQ=255)
                           aGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGt                                                                                                                                                       <  1:3249094/121‑1 (MQ=255)
                                  tAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAATTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGAaga                                                                                                                                            <  1:2581914/125‑1 (MQ=255)
                                  tAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGAaga                                                                                                                                            >  2:2581914/1‑125 (MQ=255)
                                       gCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTc                                                                                                              <  1:505499/150‑1 (MQ=255)
                                                           tCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGt                                                                                          >  2:2539319/1‑150 (MQ=255)
                                                                   aGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGc                                                                                  <  1:2539319/150‑1 (MQ=255)
                                                                       gATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGAaga                                                                                                                                            <  2:377982/88‑1 (MQ=255)
                                                                       gATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGAaga                                                                                                                                            >  1:377982/1‑88 (MQ=255)
                                                                              ttGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGag                                                                                                                                              >  1:2441787/1‑78 (MQ=255)
                                                                              ttGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCCGCGaa                                                                                                                                              <  2:2441787/79‑1 (MQ=37)
                                                                                   ttAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAaga                                                                                                                                            <  2:1489271/76‑1 (MQ=255)
                                                                                   ttAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAaga                                                                                                                                            >  1:1489271/1‑76 (MQ=255)
                                                                                      ggCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCcgcg                                                                                                                                                <  1:2115106/69‑1 (MQ=25)
                                                                                      ggCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCACGCCcgcg                                                                                                                                                >  2:2115106/1‑69 (MQ=25)
                                                                                                     cAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGc                                                                                                                               <  2:1238992/71‑1 (MQ=255)
                                                                                                     cAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGc                                                                                                                               >  1:1238992/1‑71 (MQ=255)
                                                                                                      aaGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGaa                                                                                                                                              >  2:1014997/1‑55 (MQ=255)
                                                                                                      aaGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGaa                                                                                                                                              <  1:1014997/55‑1 (MQ=255)
                                                                                                                              gTCAGGGCCTCTTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCtt                                                                     >  2:1136384/1‑104 (MQ=255)
                                                                                                                              gTCAGGGCCTCTTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCtt                                                                     <  1:1136384/104‑1 (MQ=255)
                                                                                                                                 aGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGc                                                        >  1:1533993/1‑114 (MQ=255)
                                                                                                                                 aGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGc                                                        <  2:1533993/114‑1 (MQ=255)
                                                                                                                                 aGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGTGGTTCTGTCAc                    >  1:468490/1‑150 (MQ=255)
                                                                                                                                  gggCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAggg                                                                        <  2:1609614/97‑1 (MQ=255)
                                                                                                                                  gggCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAggg                                                                        >  1:1609614/1‑97 (MQ=255)
                                                                                                                                     ccTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTTCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGTCTGCccagcc                                  <  1:786397/132‑1 (MQ=255)
                                                                                                                                     ccTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTTCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGTCTGCccagcc                                  >  2:786397/1‑132 (MQ=255)
                                                                                                                                     ccTCTTCGCGGACACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGc                                            >  1:318566/1‑122 (MQ=255)
                                                                                                                                     ccTCTTCGCGGACACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGc                                            <  2:318566/122‑1 (MQ=255)
                                                                                                                                      ctctTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGt                               >  2:2453588/1‑134 (MQ=255)
                                                                                                                                      ctctTCGCGGGCGTGCCCGCGAAGAGGCCCCGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGt                               <  1:2453588/134‑1 (MQ=255)
                                                                                                                                      ctctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTgg                                                                                           <  2:964324/74‑1 (MQ=25)
                                                                                                                                      ctctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTgg                                                                                           >  1:964324/1‑74 (MQ=25)
                                                                                                                                      ctctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGt                                                          >  2:1488911/1‑107 (MQ=255)
                                                                                                                                      ctctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGt                                                          <  1:1488911/107‑1 (MQ=255)
                                                                                                                                      ctctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGTGATTCTGTCACGtctc               >  1:336819/1‑150 (MQ=255)
                                                                                                                                       tctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCctgctgc                                                                                              >  2:3305810/1‑70 (MQ=25)
                                                                                                                                       tctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCctgctgc                                                                                              <  1:3305810/70‑1 (MQ=25)
                                                                                                                                       tctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCccagc                                   >  1:1451377/1‑129 (MQ=255)
                                                                                                                                       tctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCccagc                                   <  2:1451377/129‑1 (MQ=255)
                                                                                                                                       tctTCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGTGATTCTGTCACGTCTCg              >  1:283210/1‑150 (MQ=255)
                                                                                                                                         ttggcgGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGTGATTCTGTCACGTCTCGaa            >  1:3397597/4‑150 (MQ=255)
                                                                                                                                         ttCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCctgc                                                                                                 >  1:667774/1‑65 (MQ=21)
                                                                                                                                         ttCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCctgc                                                                                                 <  2:667774/65‑1 (MQ=21)
                                                                                                                                         ttCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTg                                                                                        >  1:1787406/1‑74 (MQ=25)
                                                                                                                                         ttCGCGGGCACGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTg                                                                                        <  2:1787406/74‑1 (MQ=25)
                                                                                                                                              gggCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGcc                                           >  2:2248643/1‑114 (MQ=255)
                                                                                                                                              gggCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGcc                                           <  1:2248643/114‑1 (MQ=255)
                                                                                                                                               ggCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATTCGTGCCGATTCATCGGCCTGCcca                                     <  1:189212/119‑1 (MQ=255)
                                                                                                                                               ggCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATTCGTGCCGATTCATCGGCCTGCcca                                     >  2:189212/1‑119 (MQ=255)
                                                                                                                                                   tGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGGGATTCTGTTACGTCTCGAATGCCGGcccc  >  1:2035854/1‑148 (MQ=255)
                                                                                                                                                   |                                                                                                                                                     
TGGCGATGAACAGGGTGGCGGCGATCGAGGTGCGTAAAAGCCCTTGTTCGCTGGTGATGTCGAAGAAAGTGGATCGGGTTGGATTAGGCATAAGTTGTGCTCAAGAATAACGATGGTGCGGTGCCTGTCAGGGCCTCTTCGCGGGCGTGCCCGCGAAGAGGCCCTGACAGGCTAGACGCGAAACTGCTCCATCAGCGCCTGCTGCTGGTTGGCCAGCCGGTTCAGGGCTTGGCTGATGCGTGCCGATTCATCGGCCTGCCCAGCCAGTGATTCTGTCACGTCTCGAATGCCGGCCAC  >  NC_002947/1403450‑1403746

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑