Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_vch_tpiA1,544,0211.A73.1% 52.4 / 20.2 26coding (40/1389 nt)narUnitrate/nitrite transporter
Reads supporting (aligned to +/- strand):  ref base . (3/4);  new base A (11/8);  total (14/12)
Fisher's exact test for biased strand distribution p-value = 6.65e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01
Rejected as consensus: Frequency below/above cutoff threshold.

GCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCG‑C‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAA  >  NC_000913_3_vch_tpiA/1543897‑1544157
                                                                                                                             |                                                                                                                                           
gcgcTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCATAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTtct                                                                                                                   <  1:73178/149‑1 (MQ=255)
  gcTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCAAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCATTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCa                                                                                                                 >  2:249514/1‑149 (MQ=255)
        tAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATAGCCAGACATTACTCCGAGCAATATGTGTTCCTTTATTTTCCCCGAAGGCCGGATTTTCGCGTTTCCAGNCGCG‑A‑A‑ATAANANANAGACTATTTTTCTCATATTGc                                                                                                           >  1:485284/1‑149 (MQ=255)
                        caGGCAANAAGTAGACAGCTGCTTAATGTCCAGAGATTTCTTCGATCAATATGTATACCTTTATTTTCCCTGTAGGCCGGATTTTCTGGTTTCCAGTCGCG‑AAA‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTcc                                                                                           <  2:485284/148‑1 (MQ=255)
                         aGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCt                                                                                          >  1:83605/1‑149 (MQ=255)
                              agaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACAt                                                                                     <  2:83605/149‑1 (MQ=255)
                                       cAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCA‑TTTGCAGTGCCATATTGTTc                                                                                            >  1:431296/1‑132 (MQ=255)
                                       cAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCA‑TTTGCAGTGCCATATTGTTc                                                                                            <  2:431296/132‑1 (MQ=255)
                                            gactgaTATCCAGAGATTTGTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTaa                                                                       <  1:426770/149‑1 (MQ=255)
                                                gaTATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTGCCTCACATGCACACATTGGTAATGaa                                                                   <  1:7744/149‑1 (MQ=255)
                                                         agaTTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTACCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACa                                                          >  1:296628/1‑149 (MQ=255)
                                                               cttcGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAacac                                                    <  1:490457/149‑1 (MQ=255)
                                                                ttcGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACg                                                   >  2:457629/1‑149 (MQ=255)
                                                                 tctaGCAATATGTTTTGCTTTGTTTTCCCATAATGCCGGATTTTCTGGTTTCCAGTCGCG‑AAA‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTTCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGa                                                  <  2:146451/146‑1 (MQ=255)
                                                                         tatGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGGGGTAAGgc                                          >  1:51214/1‑149 (MQ=255)
                                                                                  cTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGgcgccacaacc                                 >  2:551773/1‑142 (MQ=255)
                                                                                   tttATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCa                                >  1:326806/1‑149 (MQ=255)
                                                                                   tttATTTTCCCAGAAGGCCGGATTTTCTGGATTCCAGACGCGAC‑A‑C‑AAGATAACAACTCTTTCACTCCTCTTGCAGCGCCAAATTCTTCCTCACATAAAAACCTAGGTCATGAACAAAAGACAACACCCGACGTATGGCGGAATCGccc                                >  2:13806/1‑148 (MQ=255)
                                                                                   ttaagtttCACAGAAGGGCGGATTTTTTGGTTTTCAGGCGCG‑A‑A‑ATAAGATAACGAGTATTTTTCTAATTTTGCACCGCCATATTGTTCCTGACATGTACATATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCa                                <  2:28876/144‑1 (MQ=255)
                                                                                             cAGACGGCAGGATGTTCTGTTTTTCAGCTACGAA‑A‑A‑AAGATAACGATGATGTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACCCGCGGTAAGGCGCAATAGCCAGTTATTAGaa                      <  2:218353/149‑1 (MQ=255)
                                                                                             cAGAATGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGaa                      <  2:390182/149‑1 (MQ=255)
                                                                                              aGAAGGCCGGATTTTCTGGTTTCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAAt                     >  1:555775/1‑149 (MQ=255)
                                                                                                     cGGATTTTCTGGTTTCCAGTCGCG‑AAA‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTACCCTAATGTTCCTCACATGCACACATTGGTAATGAAAAAAAGATAAAACACGGGGTAAGGGGCAATAGCCAGTTATTAGAATTAAGGAt              >  1:179445/1‑149 (MQ=255)
                                                                                                     cGGATTTTCTGGTTTCCAGTCGCG‑AAA‑A‑AAGATAAAGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGAAATAGCCAGTTATTAGAATTAAGGAt              >  2:560872/1‑149 (MQ=255)
                                                                                                       gatgtggtGGTTTCCGGCCGCG‑A‑ATA‑AAGATAACGACTTTTTTTCGTGTTGTGCATTGCGATATTGTTCCGCAAAGACACACATTTTTAATGAAAAAAAGACAAAACACGAGTTAAGGCTCAATAGCCAGTTATTAGAATTAAGGACGa            <  2:212765/142‑1 (MQ=255)
                                                                                                                 tttCCAGTCGCGAA‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCATCACCTACACTCATTGGTAATGAAAAACAGACAAAACACGAGATAAGGCGCAATAGACAGTTATTAAAATAAAGAATCAATTGGATGaa  >  2:572656/1‑149 (MQ=255)
                                                                                                                             |                                                                                                                                           
GCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCG‑C‑A‑A‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAA  >  NC_000913_3_vch_tpiA/1543897‑1544157

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑