Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913579,1340TC55.2% 0.6 / 36.0 30intergenic (‑241/+50)borD/ybcVprophage lipoprotein BorD/DUF1398 domain‑containing protein YbcV
Reads supporting (aligned to +/- strand):  ref base T (6/7);  new base C (9/7);  total (15/15)
Fisher's exact test for biased strand distribution p-value = 7.15e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.80e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCTTTTATGTTCGTGGATATTTGTAATCCATCGGAAAACTCCTGCTTTAGCAAGATTTTCCCTGTATTGCTGAAATGTGATTTCTCTTGATTTCAACCTATCATAGGACGTTTCTATAAGATG  >  NC_000913/578891‑579381
                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                       
cATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATg                                                                                                                                                                                                                                                   <  1:114832/250‑1 (MQ=255)
              cGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGCATTGTATTATGCCAACACCCCGGTGc                                                                                                                                                                                                                                    >  1:247034/1‑251 (MQ=255)
                          aaGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTAGTAATGTATGTCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTATCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGgaagaa                                                                                                                                                                                                                       <  1:158779/251‑1 (MQ=255)
                                     aTCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAAGATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGATTGTCCGTGAATAATTAAAAACGATGCACACGGGGTTGAGCGCGTACATGTAGTGGATTATGCCAGCACCCTGGTGCGGACACGGAAGAAACCGGACGtt                                                                                                                                                                                                             <  2:221450/251‑1 (MQ=255)
                                                    aaTTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGTCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGa                                                                                                                                                                                              >  1:82388/1‑250 (MQ=255)
                                                     aTTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGAATGTCAGGTGCGATGAATCGTCATTGTATTACCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTATGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGGTTAGCGCGTAAACGTATTGCATTATGCCAACGCAACGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGaa                                                                                                                                                                                             >  1:132974/1‑250 (MQ=255)
                                                                ccTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGTCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATACTTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTgtgt                                                                                                                                                                                   >  1:330957/1‑249 (MQ=255)
                                                                                aaaTTTCATATTGTTATTATTTATTAATGTATGTCAGGTGCGATGAATCGTCATTGTATTCCCGGACTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCtctc                                                                                                                                                                 <  1:333934/251‑1 (MQ=255)
                                                                                         atTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGTCAACACCCCTGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCTTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATa                                                                                                                                                         <  1:361149/251‑1 (MQ=255)
                                                                                             ttAATATTTATTAATGTATGTCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAAt                                                                                                                                                    >  2:194259/1‑251 (MQ=255)
                                                                                               aaTATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAAt                                                                                                                                                    <  1:222254/250‑1 (MQ=255)
                                                                                                   tttattAATGTATGTCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAAtt                                                                                                                                               >  1:81114/1‑250 (MQ=255)
                                                                                                    ttattaATGAATGCCAGGTGCGACGAATCGTCCTTCTATTCCCGGATTAACTGTGT‑CCACAGCACTGCCGGGGAACTTCTCTGCGGGAGTGCCAGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATCCCAACACCCCGGTGCTGACACGGAAGCAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTAAGTAAATAGTAATGAAtt                                                                                                                                               >  2:176061/1‑250 (MQ=255)
                                                                                                        taATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGAATAACTATGTACCA‑AGCCCTGACGGGGAAATTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGACAACACCACGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGCTTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCa                                                                                                                                           >  1:313466/1‑250 (MQ=255)
                                                                                                            gTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAgg                                                                                                                                       <  2:106627/250‑1 (MQ=255)
                                                                                                                gtcAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGCAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGt                                                                                                                                 >  2:199749/3‑251 (MQ=255)
                                                                                                                       gCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCt                                                                                                                          <  1:183124/251‑1 (MQ=255)
                                                                                                                        cGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCtt                                                                                                                         <  1:70893/251‑1 (MQ=255)
                                                                                                                         gATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAata                                                                                                                             >  2:349222/1‑247 (MQ=255)
                                                                                                                         gATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAata                                                                                                                             <  1:349222/247‑1 (MQ=255)
                                                                                                                                        tATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCTTTTATGTTCATGGatat                                                                                                         >  2:100035/1‑251 (MQ=255)
                                                                                                                                         aTTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCTTTTATGTTCATGGatat                                                                                                         <  1:194259/250‑1 (MQ=255)
                                                                                                                                                    aaCTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGCATAATTAAAAACGATGCACACAGGGATTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGAACGTTATGATTTAGCGTGGAAAGCTTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTCTTGAATTATCAAAGGTATAGTAATATCTTTTATGTTCGTGGATATTTGTAATCCAt                                                                                              >  2:9660/1‑251 (MQ=255)
                                                                                                                                                        aTGT‑CCACAGCCCTGCCGGGGAACTTCTCTGCGGGAGTCTCCGGGTATAATTCAAA‑CGATGCACACCGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCACCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTCAATAGTAATGAATTATCAAAGGTATAGTAATATCTTTTATGTTCATGGATATTTGTAACCCATCGGa                                                                                          >  2:136043/1‑250 (MQ=25)
                                                                                                                                                               acaGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATTCACACAGGGTTTAGCGCGTACACGTATTGCATTAGGCCAACGCCCCGGTTCTGACACGGAAGAAACCTGACGTTATGATTTAGCGTGGAAAGATTTGGGTAGTGTTCGGATGGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAat                                                                                                                              <  1:329629/208‑1 (MQ=37)
                                                                                                                                                               acaGCCCTGAAGGCGCACTTCTCTGAGGGAGTGTCCGGGAATAATTCCAA‑CAATGCACACAGGGTTTCGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGCAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAat                                                                                                                              >  2:329629/1‑208 (MQ=25)
                                                                                                                                                                  gCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCTTTTATGTTCGTGGATATTTGTAATCCATCGGAAAATTCCTg                                                                                 <  1:13121/251‑1 (MQ=255)
                                                                                                                                                                       gACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAA‑CGATGCACACAGGGTTTAGCGCGTACACGTATTGCATTATGCCAACGCCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCTTTTATGTTCATGGATATTTGTAACCCATCGGAAAACTCCTGCTTTa                                                                            <  2:82665/250‑1 (MQ=37)
                                                                                                                                                                         cGGGGAACTTCTCTGCGGGAGTGGCCGGGAATAATTAAAAACGATGCACACCGGGTTTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTACATAGTAATGAATTATCAAAGGCATAGTACTTTCTTTTATGTTCGTGGATATTTGTAATCCATCGGAACACTCCTTCTTTAGc                                                                          >  2:38675/1‑251 (MQ=255)
                                                                                                                                                                                                              aaaaCGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGCCAGCACCCCGGTGCTGACACGGAAGAAACCTGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCGTTTATGGGCGTGGATATTTGTAATCCATCGGAAAACTCCTGCTTTAGCAAGATTGTCCCTGTATTGCTGATATGTGATTTCTCtt                                     <  2:247034/251‑1 (MQ=37)
                                                                                                                                                                                                                                                 ttgtattATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCTTTTATGTTCGTGGATATTTGTAATCCATCGGAAAACTCCTGCTTTAGCAAGATTTTCCCTGTATTGCTGAAATGTGATTTCTCTTGATTTCAACCTATCATAGGACGTTTCTATAAGATg  >  1:250519/1‑251 (MQ=255)
                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                       
CATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGT‑CCACAGCCCTGACGGGGAACTTCTCTGCGGGAGTGTCCGGGAATAATTAAAAACGATGCACACAGGGTTTAGCGCGTACATGTATTGTATTATGCCAACACCCCGGTGCTGACACGGAAGAAACCGGACGTTATGATTTAGCGTGGAAAGATTTGTGTAGTGTTCTGAATGCTCTCAGTAAATAGTAATGAATTATCAAAGGTATAGTAATATCTTTTATGTTCGTGGATATTTGTAATCCATCGGAAAACTCCTGCTTTAGCAAGATTTTCCCTGTATTGCTGAAATGTGATTTCTCTTGATTTCAACCTATCATAGGACGTTTCTATAAGATG  >  NC_000913/578891‑579381

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑