Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913107,5460TG41.7% 22.3 / 12.1 24intergenic (+72/‑159)lpxC/secMUDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase/SecA translation regulator
Reads supporting (aligned to +/- strand):  ref base T (2/12);  new base G (10/0);  total (12/12)
Fisher's exact test for biased strand distribution p-value = 6.73e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCTTTAATGATAAGATTTGTGCGCTAAATACGTTTGAATAT  >  NC_000913/107411‑107686
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gACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑tttttt                                                                                                                                         >  1:1025061/1‑141 (MQ=255)
gACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑tttttt                                                                                                                                         >  1:957985/1‑141 (MQ=255)
gACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑gttttt                                                                                                                                         >  1:1287403/1‑141 (MQ=255)
gACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑gttttt                                                                                                                                         >  1:1696480/1‑141 (MQ=255)
gACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑gttttt                                                                                                                                         >  1:1696670/1‑141 (MQ=255)
gACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑gttttt                                                                                                                                         >  1:1798266/1‑141 (MQ=255)
gACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑gttttt                                                                                                                                         >  1:211796/1‑141 (MQ=255)
    ttCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑gttttttttt                                                                                                                                     >  1:1633787/1‑139 (MQ=255)
     tCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGt‑gttttttttta                                                                                                                                    >  2:1075577/1‑138 (MQ=255)
            cgacgCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTttttttatttttta                                                                                                                             >  2:1459650/1‑141 (MQ=255)
            cgacgCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTTTTTTTAATTtata                                                                                                                             >  1:1094414/1‑141 (MQ=255)
              acgCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTTTTTTTATTTTTTaat                                                                                                                           >  2:1615342/1‑140 (MQ=255)
                 cAGAACTGCCGTTGGCCTTCACAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGc                                                                                                                        <  2:109027/141‑1 (MQ=255)
                   gAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTTTTTGTATTTTTTaatttctg                                                                                                                      >  2:1093740/1‑135 (MQ=255)
                        gCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTGTTTTTTTTTTATTTT‑TAATATCTATaaaa                                                                                                                 >  1:307729/1‑141 (MQ=255)
                            ttGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACg                                                                                                             <  2:1321869/141‑1 (MQ=255)
                                           ccTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTTTTTTTATTTTTTTATTTCTATAAAAAAAGGTGCGTACGCGGttt                                                                                              >  2:447411/1‑141 (MQ=255)
                                                    gTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTTTTTTTATTTTTTAATATCAATAAAAAAAAGTGGGAACGCGGTtttttttttaa                                                                                     >  2:1387100/1‑136 (MQ=255)
                                                     tACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTTTTTGATTTTTATAATATCTATAAAAAAACGTGCGAACGCGGTTTTGTTAATCAc                                                                                    >  2:1782305/1‑141 (MQ=255)
                                                             taccGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGc                                                                            <  1:1929370/138‑1 (MQ=255)
                                                             tAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCCATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGc                                                                            <  1:1806964/141‑1 (MQ=255)
                                                               aCGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcac                                                                          <  2:864209/141‑1 (MQ=255)
                                                                            tGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCAt                                                             <  2:504811/141‑1 (MQ=255)
                                                                             gTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTTTTTTGATTTTTTAATATCTATAAAAAAAAGTGGGGACGCCGTTTTATTTAGCACATATGCGCCCAACATATATTCCtt                                                            >  2:322879/1‑141 (MQ=255)
                                                                                       aTTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTTAATTTTATTAAAAGAATAAAAAAACGTGGGAACGCAGTTTTGTTAATCAATTTTACGCACAACATATGTTAATTCGTGGTTTgg                                                  >  2:1230134/1‑141 (MQ=255)
                                                                                              tGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAg                                           <  1:1459650/141‑1 (MQ=255)
                                                                                                  aaaTCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCtt                                       <  2:470987/141‑1 (MQ=255)
                                                                                                  aaaTCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCtt                                       <  2:471113/141‑1 (MQ=255)
                                                                                                       tGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCTTTAATg                                  <  2:1905929/141‑1 (MQ=255)
                                                                                                         gCACTCTCTCCGGCCAGGTGACCCAGTCGT‑GTTTTTTTTTATTTTATTAGATCTATAAAAAACCGGGCGAACGCAGTGTTGGTAAACCAGTTTTAGCACAACTTATCTTAATTAGTGGTGGGGGCTGCTGGCgttgtgtat                                >  2:1700041/1‑135 (MQ=255)
                                                                                                         gCACTCTCTCCGGCCAGGTGAACCAGTCGT‑GTTTTTTTGTATTTTATAATATATATAAAAAAACGTGCGAAAGCGGGTTTGTTAATCACTTTTAACCACAACAAATTGTAAATAGTTCTGGTGACTGCAGGCTTTAAtttt                                >  2:1699102/1‑138 (MQ=255)
                                                                                                                                cAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCTTTAATGATAAGATTTGTGCGCTAAATACGtt         <  1:1565638/141‑1 (MQ=255)
                                                                                                                                    cGT‑TTTTTTTTGAATTTTAAAAGCGCTATAAAAAACGGAGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCTTTAATGATAAGATTTGTGCGCTAAATACGTTTGaa     <  2:1110270/141‑1 (MQ=255)
                                                                                                                                        ttttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCTTTAATGATAAGATTTGTGCGCTAAATACGTTTGAatat  <  2:474344/141‑1 (MQ=255)
                                                                                                                                        ttttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCTTTAATGATAAGATTTGTGCGCTAAATACGTTTGAatat  <  2:475496/141‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                            
GACCTTCCAGGACGACGCAGAACTGCCGTTGGCCTTCAAAGCGCCTTCAGCTGTACTGGCATAACGACATTTATACTGTCGTATAAAATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCGT‑TTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGTGCTGTGGACTGCAGGCTTTAATGATAAGATTTGTGCGCTAAATACGTTTGAATAT  >  NC_000913/107411‑107686

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑