Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273585,3860AG53.8% 8.8 / 16.8 13L342P (CTC→CCC) nfrAbacteriophage adsorption protein NfrA
Reads supporting (aligned to +/- strand):  ref base A (0/6);  new base G (7/0);  total (7/6)
Fisher's exact test for biased strand distribution p-value = 5.83e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.56e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CAGAGCTTCAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCACCGGTAGCGTCGCGCCAACAACA  >  NZ_CP009273/585316‑585460
                                                                      |                                                                          
cAGAGCTTCAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGGGGGGGGGGGGCAGgttttt                                                         >  2:170284/1‑89 (MQ=255)
     cTTCAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTg                                                    <  1:78602/90‑1 (MQ=255)
      ttCAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGGGGGGGGGGGGGAGGTTTTTtgctgc                                                   >  2:389540/1‑90 (MQ=255)
        cAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGcgt                                                 <  1:487712/90‑1 (MQ=255)
                             cGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACa                            <  1:170284/90‑1 (MQ=255)
                                 gACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCAc                        <  1:487255/90‑1 (MQ=255)
                                     gCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCACCGGt                    <  2:377959/90‑1 (MQ=255)
                                       aTAACGCTCCTCAAGCATTTCATTGGCGGGGGGGGGGGGGGGGAGGTTTTTCGCTGCGTCGTACTGACCTTCTTTTTAAAGCAACGGTAg                  >  1:55896/1‑90 (MQ=255)
                                             ctcctcAAGCATTTCATTGGCGGGGGGGGGGGGGGGCAGGTTTTTCGCTGCGTCGTACTGACCTTTTTTTTACAGCACCGGGAGGGgcgc            >  2:606546/1‑90 (MQ=255)
                                                ctcAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCACCGGTAGCGTCGCGcc         <  2:545909/90‑1 (MQ=255)
                                                    aGCATTTCATTGGCGGGGGGGGGGGGGGGCAGGTTTTTCGCTGCGTCGTACTTACCTTCTTTTTAAAGCACCCGGAGCGGCGCGCccaca     >  1:244016/1‑90 (MQ=255)
                                                       aTTTCATTGGCGGGGGGGGGGGGGGGCAGGTTTTTTGCTGCGTCGTACTTACCTTCTTTTTACAACACCCGGAGGGGGGCGCCCacaaca  >  1:40146/1‑90 (MQ=255)
                                                       aTTTCATTGGCGGGGGGGGGGGGGGGCAGGTTTTTTGCTGCGGCGGTCTGACCTTTTTTTTAAAACAACGGGAGGGGCGCGGCCacaaca  >  2:465797/1‑90 (MQ=255)
                                                                      |                                                                          
CAGAGCTTCAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCACCGGTAGCGTCGCGCCAACAACA  >  NZ_CP009273/585316‑585460

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑