Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273585,3950AG54.5% 6.3 / 12.4 11L339P (CTC→CCC) nfrAbacteriophage adsorption protein NfrA
Reads supporting (aligned to +/- strand):  ref base A (1/4);  new base G (6/0);  total (7/4)
Fisher's exact test for biased strand distribution p-value = 1.52e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.28e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CCAGACGCAGAGCTTCAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCACCGGTAGCGTCGCGCCAACAACA  >  NZ_CP009273/585309‑585460
                                                                                      |                                                                 
ccAGACGCAGAGCTTCAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCa                                                                <  1:208444/90‑1 (MQ=255)
               cAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGcgt                                                 <  1:241139/90‑1 (MQ=255)
                   cTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGGGGGGGGGGGGGAGGTTTTTCTCTGcgtcgca                                             >  1:483754/1‑88 (MQ=255)
                     tGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGGGGGGGGGGGGCAGGTTTTTTGCTGCGTCGTTCt                                           >  1:445405/1‑90 (MQ=255)
                         cagggTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGAcc                                       <  2:157792/88‑1 (MQ=255)
                           gggTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGGGGGGGGCGGGCAGGTTTTGCGCTGCGTCGTACTGACctt                                     >  1:411005/1‑90 (MQ=255)
                                                      cctcAAGCATTTCATTGGCGGGGGGGGGGGGGGGGCGGTTTTTCGCTTCGGCGGACTTGCCTTCTTTTTACAGCACCGGGAGCGTGgcgc          >  1:537752/1‑90 (MQ=255)
                                                      cctcAAGCATTTCATTGGCGGGGGGGGGGGGGGGCAGGTTTTTCGCTGCGTCGTACTGACCTTCTTTTTAAAGCACCGGGAGCGgcgcgc          >  2:185552/1‑90 (MQ=255)
                                                              aTTTCATTGGCGGGGGGGGGGGGGGGGAGGTTTTTCGCCGCGGCGTTCTGTCCCTCTTTTTAAAGCACCCGGAGCGGCGCGCCCacaaca  >  1:422837/1‑90 (MQ=255)
                                                                              gggTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCACCGGTAGCGTCGCGCcaac      <  1:129958/70‑1 (MQ=255)
                                                                              gggTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCACCGGTAGCGTCGCGCcaac      >  2:129958/1‑70 (MQ=255)
                                                                                      |                                                                 
CCAGACGCAGAGCTTCAGCCTTGTTACGGGTCGCCACGCTGACAGCATAACGCTCCTCAAGCATTTCATTGGCGGGGAGGGTGGCGAGCAGTTTTTGCGCTGCGTCGTACTGACCTTCTTTTAACAGCACCGGTAGCGTCGCGCCAACAACA  >  NZ_CP009273/585309‑585460

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑