Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913578,8310TC50.0% 1.4 / 24.4 26T21T (ACA→ACG) borDprophage lipoprotein BorD
Reads supporting (aligned to +/- strand):  ref base T (4/9);  new base C (4/9);  total (8/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.00e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGTTTTAACAACATTTTCTGCGCCGCCACAAATTTTAGCTGCATCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGTCCACAGCCCTGACGGG  >  NC_000913/578591‑579062
                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                       
aacATGCAATTATTGTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGTTTTAACAACATTTTCTGCGCCGCCACAAATTTTAGCTGCATCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGan                                                                                                                                                                                                                               <  1:200057/249‑2 (MQ=255)
 tCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAAACGACCAATCCATTTCCGAATGTTTGATGGGTTTCTGTTTTAACAACATTTTCTGCGCAGCCACAAACTTTAGCTGCATCGAAAGTTTTCTTATGCCCAATTACAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTATGTTGAGc                                                                                                                                                                                                                              >  1:303254/1‑251 (MQ=255)
                    aaTACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCATTCCATTTACGAATGTTTGCTGGGTTTCTGTTTTAACAACATTTTCTGCGCCGCCACAAATTTTAGCTGCATCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAgg                                                                                                                                                                                                           <  1:15403/251‑1 (MQ=255)
                         ccacGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTGGCTGGGTTTCTGTTTTAACAACATTTTCTGCGCCGCCACAAATTTTGGCTGCATCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAAGAAATGATGGGGGATGGTTTCCTTTGGTGCTACTGCTGCCGGTTTGTTTTGAACAGTAAACGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAg                                                                                                                                                                                                      <  1:168660/250‑1 (MQ=255)
                                                                    cGAGCAATCCATTTATGAATGTTTGCTGGGTTTCTGTTTTACCAACATTTTCTGCGCCGCCACAAATTTTGGCTGCATCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAATAAATGATGGGTGATGTTTTCCTTTGGTGCTTCTGCTGCCGGTTTGTTTTGAACAGTATACGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTATCGATTAGCATTTTTTTCATGGTGATATTCCCGATg                                                                                                                                                           <  1:252358/251‑1 (MQ=255)
                                                                    cGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGTTTTAACAACATTTTCTGCGCCGCCACAAATTTTGGCTGCATCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGCCGGTTTGTTTTGAACAGTAAACGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATg                                                                                                                                                           <  1:252357/251‑1 (MQ=255)
                                                                    cGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGTTTTAACAACATTTTCGGCGCCGCCACAAATTTTAGCTGCATCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGGTTGTTTTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATg                                                                                                                                                           <  1:160759/251‑1 (MQ=255)
                                                                                   cGAATGTTTGCTGGGTTTCTGTTTTAACAACATTTTCTGCGCCGCCACAAATTGTGGCTGCATCGACAGTTTTCTTCTGCCCTATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGCCGGTTTGTTTTGAACAGTAAACGTCTGTTGAGcac                                                                                                                                                                                                                            <  1:132606/171‑1 (MQ=255)
                                                                                                                                         tAGCTGCATCGACAGTTTTCTTCTGCCCAAGTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCGACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGAGCACAGTCTGTAAGAAGCAGGGCCAGCGCAGGAGCTAGTATCAGTTTTTTCATGGTTTTATTCCCGATGCTATTTGAAGTTCGCAGAATCGGAtgtg                                                                                                                               <  1:220139/210‑1 (MQ=255)
                                                                                                                                               naTCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGCCGGTTTGTTTTGAACAGTAAACGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGAGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCat                                                                                     >  1:37321/2‑246 (MQ=255)
                                                                                                                                                                  nccAATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGAGCACATCCTGAAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGaa                                                                                            >  1:84339/2‑220 (MQ=255)
                                                                                                                                                                      cttCCAGAAACGAAGAAATGATGGGGGATGGTTTCCTTTGGTGCTACTGATGTTGGCTTGTTTTCAACCGTAAGCGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCCGTAGCGAGAAGCGTTTTTTTCATGGGGTTATTCCCGATGCttttt                                                                                                                                                     >  1:159325/2‑159 (MQ=255)
                                                                                                                                                                        tCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGATACTGCTGCCGGATTGTTTTGAACAGTAAACGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCg                                                                                                                                             >  1:125759/1‑165 (MQ=255)
                                                                                                                                                                         ccAGAAACGAAGAAAGGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGCCGGTTTGTTTTGAACAGTAAACGTCTGTTGAGCACATCCTGTAATAAGCAGGTCCAGCGCAGTAGCGAGTAGGATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTcn                                                                                                                                             <  1:35202/164‑2 (MQ=255)
                                                                                                                                                                           aGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTg                                                                                                                                                    <  1:143605/155‑1 (MQ=255)
                                                                                                                                                                                        tgaggggTGATGGTTTCCTTTGGTTCTACTGCTGCCGGTTTGTGTTGAGCAGTAAACGTCGGTTGAGCACAGCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATgg                                                                                                                                                                         <  1:210661/117‑1 (MQ=255)
                                                                                                                                                                                          atgGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGAAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGt                                     <  1:330701/251‑1 (MQ=255)
                                                                                                                                                                                          atgGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGAAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAAGTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGt                                     <  1:330704/251‑1 (MQ=255)
                                                                                                                                                                                                  tGGTTTCCTTTGGTGCTACTGCTTCCGGTTTGTTTTGAACAGTAAACGGCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCAttttttt                                                                                                                                                                              <  1:120488/106‑1 (MQ=255)
                                                                                                                                                                                                         cTTTGGTGCTACTGCTGCCGGTTTGTTTTGAAAAGNAAANNACNNTTNAGcac                                                                                                                                                                                                                            <  2:177366/53‑1 (MQ=255)
                                                                                                                                                                                                                      gctgccggtttgtttTGAACAGTAAACGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTGAATATTTATTAATGTATGTCAGGt                                                       <  1:263725/198‑1 (MQ=255)
                                                                                                                                                                                                                             gtttgtttTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGTCCACAGCCCTGAc     <  1:250914/248‑1 (MQ=255)
                                                                                                                                                                                                                             gtttgtttTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGCAGCATTTTTTTCATGGAGTTATTCCCGATGCTTTTTGAAGTTCGCCGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGCAATTTCATATTGTTAATATTTATTAATGTATGACAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGTCCACAGCCCTGACggg  >  1:222738/1‑251 (MQ=255)
                                                                                                                                                                                                                                  ttttGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGt                                                                                                                                                                                         <  1:315/63‑1 (MQ=255)
                                                                                                                                                                                                                                  ttttGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGt                                                                                                                                                                                         >  2:315/1‑63 (MQ=255)
                                                                                                                                                                                                                                  ttttGAACAGTAAACGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAgcgc                                                                                                                                                                                                   >  2:197712/1‑53 (MQ=255)
                                                                                                                                                                                                                                  ttttGAACAGGAAACGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAgcgn                                                                                                                                                                                                   <  1:197712/53‑2 (MQ=255)
                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                       
CTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGTTTTAACAACATTTTCTGCGCCGCCACAAATTTTAGCTGCATCGACAGTTTTCTTCTGCCCAATTCCAGAAACGAAGAAATGATGGGTGATGGTTTCCTTTGGTGCTACTGCTGTCTGTTTGTTTTGAACAGTAAATGTCTGTTGAGCACATCCTGTAATAAGCAGGGCCAGCGCAGTAGCGAGTAGCATTTTTTTCATGGTGTTATTCCCGATGCTTTTTGAAGTTCGCAGAATCGTATGTGTAGAAAATTAAACAAACCCTAAACAATGAGTTGAAATTTCATATTGTTAATATTTATTAATGTATGCCAGGTGCGATGAATCGTCATTGTATTCCCGGATTAACTATGTCCACAGCCCTGACGGG  >  NC_000913/578591‑579062

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: ‑