Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00091329,4960TA27.6% 59.9 / 13.1 29intergenic (+301/‑155)dapB/carAdihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
Reads supporting (aligned to +/- strand):  ref base T (19/2);  new base A (0/8);  total (19/10)
Fisher's exact test for biased strand distribution p-value = 1.05e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TTGGCCCTTTTATTTTTGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTT‑AA‑TGTAAA‑TTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCAACAGGTTCGGCGGTTG  >  NC_000913/29263‑29732
                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                            
ttGGCCCTTTTATTTTTGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTT‑AA‑TGTAAA‑TTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATaaaaa                                                                                                                                                                                                                                         >  1:360192/1‑239 (MQ=255)
         ttATTTTTGTGTTTTTGTTTTTAAATTTGATAAAAGGGCAAAAATTTTACTTTTTTTTCTTTTTTTTTTTTTGTTTT‑AATTGTAAT‑TTTGTACTTTTTGGCCCTTTTTTTTCTTCTCTTTTTATTTTCAGGCATTCTTCTTGCTGCGCAAGCGTTTCC‑AAAAAAAGGTTAGATAATTTTTTTGTCG‑TTAATTCCTTAAAAAACATGCAGGACCAAAAAAAAAATAAAAAAAATCCCGcc                                                                                                                                                                                                                                 <  2:340944/239‑1 (MQ=255)
             ttttGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTT‑AA‑TGTAAA‑TTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTaa                                                                                                                                                                                                                            >  1:340944/1‑239 (MQ=255)
                 ggTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTT‑AA‑TGTAAA‑TTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGTTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTaa                                                                                                                                                                                                                            >  1:754296/1‑235 (MQ=255)
                                               ccAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTT‑AA‑TGTAAA‑TTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATgcc                                                                                                                                                                                           >  1:253668/1‑238 (MQ=255)
                                                              tttGTCTTCTGTTTTTGTTGTTTT‑AA‑TGTAAA‑TTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTa                                                                                                                                                                                                                 >  1:129008/1‑201 (MQ=255)
                                                              tttGTCTTCTGTTTTTGTTGTTTT‑AA‑TGTAAA‑TTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAAt                                                                                                                                                                           >  2:903/1‑239 (MQ=255)
                                                                           tttGTTTTTTTAAA‑AGTAAATTTTTAACTTTTTGCCCCGTTTTTTTCTGTTTTTTTTTTTTTAAGTCATTCTTTTTGCGGCG‑AAGGTTTTTCACAAAACGGGTTAAATTTTTTTTTTGTCCTTAAATCCC‑TAAAAAAAATGAAGGAGCCAAAAAAAAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTTCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAg                                                                                                                                                                <  2:215664/239‑1 (MQ=255)
                                                                                          tGTAAT‑TTTTGACCTTTTGCTCCTCTTTTTCCTGCTCTTTTTTATTTCATGCAATCTTCTTGCTGCGAAGGCGTTTAC‑AAAAACAGTTTAGATGATTTTTTTGTCGCTTAATGCC‑TGAAAAACATGCATGAGCCAAAAAAAAAAAAAAAAACTCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGAt                                                                                                                                                 <  2:253668/239‑1 (MQ=255)
                                                                                            taaatttttGCCTATTTGCACCTTTTTTTTCTGTTTGTTTTTTTTTCATGCATTTTTTTTGCTGCACAAGGTTTTCC‑CAAAAGAGGTTAGATTATTTTTTTGTCGTTTAATCCC‑TAAAAAACATGCATGACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGAtt                                                                                                                                                <  2:360192/234‑1 (MQ=255)
                                                                                                                               tgTTTTTTTTTCATCCATTCTTCTTGCTGCGCAGTCTTTTAC‑AAGAACAGGTTAGATTTTCTTTTTGTCTCTTAATCCT‑TGAAAAACATGAAGGAGCCAAAAAATAATAAAAAAACTCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAagt                                                                                                             <  2:224277/238‑1 (MQ=255)
                                                                                                                                            tGCAATCTTCTTGCTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATAtctc                                                                                                                                                                                                    >  1:354462/1‑139 (MQ=255)
                                                                                                                                                           gcgcAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGgtgt                                                                                     >  2:540048/1‑235 (MQ=255)
                                                                                                                                                            cgcAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACg                                                                                                                                            >  1:86858/1‑179 (MQ=255)
                                                                                                                                                                                  gTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTgg                                                                                            >  1:792862/1‑206 (MQ=255)
                                                                                                                                                                                  gTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGt                                                             >  1:721740/1‑237 (MQ=255)
                                                                                                                                                                                           tCTTTTTGTCTCTAAATCCC‑TAAAAAACATGCATGACCCAAAAAAAAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAAtt                                                                                                                                                                          <  2:441597/119‑1 (MQ=255)
                                                                                                                                                                                            cTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATg                                                                                                                       >  1:635268/1‑169 (MQ=255)
                                                                                                                                                                                            cTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGa                                                                                           >  1:850116/1‑197 (MQ=255)
                                                                                                                                                                                                     gCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAg                                                                                                                                                                >  1:441597/1‑119 (MQ=255)
                                                                                                                                                                                                      cTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCa                                                                                                                                                                                                          <  1:818501/76‑1 (MQ=255)
                                                                                                                                                                                                      cTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCa                                                                                                                                                                                                          >  2:818501/1‑76 (MQ=255)
                                                                                                                                                                                                        ttaggcaataaaaaaCATGCAAGACACAAAAAAAAAAAAAAAAACGCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGGGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAAcc                                             <  2:862380/221‑1 (MQ=255)
                                                                                                                                                                                                                  tAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACg                                                                                                                                            >  1:295745/1‑127 (MQ=255)
                                                                                                                                                                                                                  aaaaaCATGCATGACCCAAAAAAAAAAAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                                                                                                                      <  2:171439/116‑1 (MQ=255)
                                                                                                                                                                                                                            atgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                                                                                                                      >  1:89006/1‑107 (MQ=255)
                                                                                                                                                                                                                            atgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                                                                                                                      <  2:89006/107‑1 (MQ=255)
                                                                                                                                                                                                                            atgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACg                                                                                                                                            >  1:171439/1‑117 (MQ=255)
                                                                                                                                                                                                                                 ccACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACg                                                                                                                                            >  1:442443/1‑112 (MQ=255)
                                                                                                                                                                                                                                            tataAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCAACAGGTTCGGCGGTTg  >  2:571185/1‑239 (MQ=255)
                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                            
TTGGCCCTTTTATTTTTGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTT‑AA‑TGTAAA‑TTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTC‑CAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCC‑TGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCAACAGGTTCGGCGGTTG  >  NC_000913/29263‑29732

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑