Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00091329,4960TA33.3% 74.5 / 22.1 42intergenic (+301/‑155)dapB/carA4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha
Reads supporting (aligned to +/- strand):  ref base T (26/2);  new base A (0/14);  total (26/16)
Fisher's exact test for biased strand distribution p-value = 2.27e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATAT  >  NC_000913/29385‑29635
                                                                                                                |                                                                                                                                           
ttctttttttttTCATGCATTTTTCTTGCTGCGCAAGCTTTTCCAAAAACGGTTTAGATATTTTTTTTGCCG‑TTAAATCCTTTAAAACCATGCAGGACCCAAAAAAAAATAAAAAAAATCCCGCCATTAAGTTGACtttt                                                                                                                 <  2:445994/136‑1 (MQ=255)
 tttttttttttTCATCCATTTTTTTTGCGGCGCAAGTTTTTCCCAGAACAGGTTAGATGATTTTTTTGTCGTTTAATGCCTAAAAAA‑CATGCATGAGCCACAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTa                                                                                                                <  2:1004890/137‑1 (MQ=255)
    ttttttttTCATGCATTTTTCTTGCGGCGAAAGCTTTTCCAAGAACGGTTTAGATTATTTTTTTGTCGTTTAATGCCTAAAAAA‑CATGCATGAGCCAAAAAATAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAgcg                                                                                                             <  2:483503/140‑1 (MQ=255)
               tGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTcc                                                                                                  >  1:483503/1‑140 (MQ=255)
               tGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTcc                                                                                                  >  1:195315/1‑140 (MQ=255)
               tGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTcc                                                                                                  >  2:413843/1‑140 (MQ=255)
               tGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTcc                                                                                                  >  1:375434/1‑140 (MQ=255)
               tGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTcc                                                                                                  >  2:235037/1‑140 (MQ=255)
                                gcAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGc                                                                                 >  2:27324/1‑140 (MQ=255)
                                                aCAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTa                                                                 >  1:993320/1‑140 (MQ=255)
                                                    gTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCa                                                             >  1:1082580/1‑140 (MQ=255)
                                                    gTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCa                                                             >  1:1190278/1‑140 (MQ=255)
                                                           tatttttttGTCGCTGAGTGCTTAAAAAA‑CATACATAAACAACAAAATAAAAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGc                                                      <  2:1014264/136‑1 (MQ=255)
                                                            ttttttttGTCGTTTAATCCCTAAAAAA‑CATGCATGACCAAAAAAATAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                     <  2:1066138/137‑1 (MQ=255)
                                                            ttttttttGTCGTTTAACGCCTAAAAAA‑CATGAATGAGCCAAAAAATAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCGGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                     <  2:385071/137‑1 (MQ=255)
                                                            ttttttttGTCGTTAAATGCCTGAAAAA‑CATGCATGACCCAAAAAAAAATAAAAAAACCCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                     <  2:1051279/137‑1 (MQ=255)
                                                            ttttttttGCCGTTTATTGCTTGAAAAA‑CATGCAGGAGCCAAAAAATAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                     <  1:204087/137‑1 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:1066138/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:966047/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  2:1068533/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  2:635744/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  2:963350/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:1051279/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:1087223/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:1203545/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:558149/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:481412/1‑140 (MQ=255)
                                                              cTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAtt                                                   >  1:377311/1‑140 (MQ=255)
                                                                    tccttttAATGCCTAAAAAA‑CATGCATGAGCAAAAAAAAAAAAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTa                                             <  2:375434/135‑1 (MQ=255)
                                                                       gCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCGGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGt                                          >  1:385071/1‑140 (MQ=255)
                                                                         ttAGTGCTTGAAAAA‑CAGGCTTGAGCCAAAAAAAAATAAAAAAAGGCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtca                                        <  1:413843/140‑1 (MQ=255)
                                                                            aTGCCTGAAAAA‑CATGAATGACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtcatca                                     <  1:419477/140‑1 (MQ=255)
                                                                             tGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTcatcat                                    >  2:904955/1‑140 (MQ=255)
                                                                              gCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCAtt                                   <  1:904955/140‑1 (MQ=255)
                                                                              ccttaaaaaa‑CATGCAGGACCAAAAAAATAAAAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCAtt                                   <  2:966047/134‑1 (MQ=255)
                                                                              ccctaaaaaa‑CATGAATGACCCAAAAAATAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCAtt                                   <  2:663470/134‑1 (MQ=255)
                                                                                         catgcatgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAat                         >  1:719204/1‑140 (MQ=255)
                                                                                          atgtatgAACCAAAAAAAAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAata                        <  1:569563/140‑1 (MQ=255)
                                                                                          atgcaggACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAata                        <  1:750828/140‑1 (MQ=255)
                                                                                          atgaatgaCCCAAAAAAAAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAata                        <  2:558149/140‑1 (MQ=255)
                                                                                            gcatgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATg                      >  2:1085537/1‑140 (MQ=255)
                                                                                                   ccACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATaa               >  2:759191/1‑140 (MQ=255)
                                                                                                    cacaAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATaaa              <  1:1068533/140‑1 (MQ=255)
                                                                                                    aaaaaaaTAAAAAAAACAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATaaa              <  1:888117/137‑1 (MQ=255)
                                                                                                     acaAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAag             <  1:963350/140‑1 (MQ=255)
                                                                                                     aaaaaaTAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAag             <  2:1082580/138‑1 (MQ=255)
                                                                                                      caAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAagt            >  2:297471/1‑140 (MQ=255)
                                                                                                       aaaaTAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAagtg           <  1:235037/140‑1 (MQ=255)
                                                                                                                taAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAatat  >  2:229274/1‑140 (MQ=255)
                                                                                                                |                                                                                                                                           
CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAA‑CATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATAT  >  NC_000913/29385‑29635

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑