Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00091329,4960TA34.3% 57.4 / 16.6 35intergenic (+301/‑155)dapB/carA4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha
Reads supporting (aligned to +/- strand):  ref base T (22/1);  new base A (0/12);  total (22/13)
Fisher's exact test for biased strand distribution p-value = 1.56e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATAT  >  NC_000913/29360‑29635
                                                                                                                                         |                                                                                                                                           
tGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATaaa                                                                                                                                          >  2:761793/1‑140 (MQ=255)
               cTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTaa                                                                                                                           >  1:24648/1‑140 (MQ=255)
                ttttttCTGCTTTTTTTTATTTCATCAAATTTTCTTGCTGCGCAAGCTTTTTCAAAAAGAGGTTAGATTTTTTTTTTGTCTCTTAATGCCTAAAAAACA‑TGCATGACCCAAAAAATAAAAAAAAAAATCCCGCCATTAAg                                                                                                                          <  2:421838/140‑1 (MQ=255)
                 tttttCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCACCATTAAGt                                                                                                                         >  1:93142/1‑140 (MQ=255)
                     tCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGAc                                                                                                                     >  1:672294/1‑140 (MQ=255)
                             tttttATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAAATGATTTTTTTGCCGTTTAATGCCTGTAAAACA‑TGCATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAgcg                                                                                                             <  2:390390/140‑1 (MQ=255)
                                 tATTTCATGCATTCTTCTTGCTGCGCAGGCTTTTCCAAGAACAGGTTAGATGTTTTTTTTGTCGTTTAATGCCTGAAAAACA‑TGCATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCa                                                                                                         <  2:795705/140‑1 (MQ=255)
                                      cATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATAtct                                                                                                    >  2:375047/1‑140 (MQ=255)
                                        tGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTcc                                                                                                  >  1:326737/1‑140 (MQ=255)
                                        tGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTcc                                                                                                  >  1:363480/1‑140 (MQ=255)
                                                       gcgcAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGttt                                                                                   >  2:336816/1‑140 (MQ=255)
                                                                  ttCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCACCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATtc                                                                        <  2:93142/140‑1 (MQ=255)
                                                                             gTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCa                                                             >  1:136313/1‑140 (MQ=255)
                                                                             gTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCa                                                             >  2:733639/1‑140 (MQ=255)
                                                                             gTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCa                                                             >  1:578392/1‑140 (MQ=255)
                                                                             gTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCa                                                             >  1:480443/1‑140 (MQ=255)
                                                                             gTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCa                                                             >  1:544533/1‑140 (MQ=255)
                                                                                  atgatCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGAttt                                                        >  1:317363/1‑140 (MQ=255)
                                                                                  atgatCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGAttt                                                        >  2:541424/1‑140 (MQ=255)
                                                                                    tatttttttGTCGTTTAATCCCTGAAAAACA‑TGCATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGc                                                      <  2:507040/136‑1 (MQ=255)
                                                                                     ttttttttGTCGTTTATTGCCTGAAACCCA‑TGAATGACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                     <  2:7514/137‑1 (MQ=255)
                                                                                     ttttttttGTCGTTTAATGCTTGAAAAACA‑TGCATGAGCCAAAAAAAAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                     <  1:595347/137‑1 (MQ=255)
                                                                                     ttttttttGTCGCTTAATGCTTTAAAAACA‑TGCAGGACCAAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                     <  1:432933/137‑1 (MQ=255)
                                                                                       cTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:507040/1‑140 (MQ=255)
                                                                                         ttttGTCGTTAAATCCCTAAAAAACA‑TGCATGACCCAAAAAATAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGa                                                 <  2:24648/140‑1 (MQ=255)
                                                                                           ttGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGAtt                                               >  1:132572/1‑140 (MQ=255)
                                                                                           ttGTCCCTAAATGCCT‑TAAAACATTGCTGGACCCAAAAAAAAAAAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGAtt                                               <  2:546869/140‑1 (MQ=255)
                                                                                                     atcccTGAAAAACA‑TGAATGACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtcatca                                     <  1:761793/137‑1 (MQ=255)
                                                                                                       gCCTGAAAAACA‑TGCATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCAtt                                   <  1:834557/140‑1 (MQ=255)
                                                                                                          agaaaaaCG‑TCCAGGACCCAAAAAATATTAAAAAAATTCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATtgtg                                <  2:326737/137‑1 (MQ=255)
                                                                                                                  a‑tgcatgAGCCACAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAata                        <  1:336816/140‑1 (MQ=255)
                                                                                                                      catgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGc                     >  2:121890/1‑140 (MQ=255)
                                                                                                                       atgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAata                        >  2:722694/1‑136 (MQ=255)
                                                                                                                       atgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCa                    >  1:741424/1‑140 (MQ=255)
                                                                                                                       atgAGCAACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAata                        <  1:722694/136‑1 (MQ=255)
                                                                                                                         cagcaaaaaaaTAAAAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCaaa                  <  2:578392/133‑1 (MQ=255)
                                                                                                                           gCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATa                >  2:185216/1‑140 (MQ=255)
                                                                                                                           gCCACAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATa                <  1:185216/140‑1 (MQ=255)
                                                                                                                             cacaAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATaaa              >  2:214902/1‑140 (MQ=255)
                                                                                                                             caaaaaaaaaaaaaaaaaaTCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATaaa              <  2:217592/137‑1 (MQ=255)
                                                                                                                                 aaaTAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAagtga          <  2:542909/140‑1 (MQ=255)
                                                                                                                                         taAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAatat  <  2:317363/140‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                           
TGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACA‑TGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATAT  >  NC_000913/29360‑29635

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑