Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,429,7530GA53.8% ‑5.2 / 13.0 13S235S (TCG→TCA) stfRputative prophage side tail fiber protein StfR
Reads supporting (aligned to +/- strand):  ref base G (5/1);  new base A (5/2);  total (10/3)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.90e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CCAGCACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACGGCATCAACAAAGGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCCACCGCGACCACGAAGGCATCAGAAGCTGCGACCTCGGCCCGGGATGCGGCGGCCTCAAAAGAAGCGGCAAAATCATCAGAAACGAACGCATCATCAAGCGCCAGTAGTGCAGCTTCCTCGGCAACGGCGGCAGGAAATTCCGCGAAGGCGGCAAAAACGTCCGAGACGAACGCCAGGTCTTCTGAAACGGCAGCGGGACAGAGCGCCTCGGCTGCGGCAGGCTCAAA  >  NC_000913/1429512‑1429944
                                                                                                                                                                                                                                                 |                                                                                                                                                                                               
ccagcACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACCGAATCAACACAGGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCAGCGGCCTCCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCCACCGCGACCACGAAGGCATCAGAAGCTGCGCCCTCGGCCCGGGAt                                                                                                                                                                                        >  1:229482/1‑251 (MQ=255)
                                           gTCTTCCAGCGCAGGAACGGAATCAACAAAGGCCAATGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCCACCGCGACCACGAAGGCATCAGACGCTGCGACCTCGGCCCGGGATGCGGCGGCCTCAAAAGAAGCGGCAAAATCATCAGAaacgaacg                                                                                                                                             >  1:198218/1‑251 (MQ=255)
                                                        naagcGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCATCAAAAAACGCAGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGAGGCCGCCACTTCAGCACGCGATGCGGTGGCCTCAAAAGAGACAGCAAAATCATCAGCAACGAACGCATCATCAAgtgc                                                                                                                                >  1:24836/5‑248 (MQ=255)
                                                        gaagcGGCATCAGCAACGGCCACTGAAGCGGAAAACAGTGCCGCAGCCGCAGAATCCTCACAAAACGCGGCGGACACCAGCGCCGGTGCGGCGAAAACGTCAGACACGACTGCTGCAGCGTCACAACAATCAGCCGACACGTCTGCCTTCACCGCGGCCACGAAAGCGTCAGAGGCACCCACTTCAGCACGAGATGCGGTGGCCTAAAAAGAGGCAGCAAAATCATCAGAAACGAACGCATCATCAAgtgc                                                                                                                                >  1:233429/5‑248 (MQ=255)
                                                        gaagcGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAACAACCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTTCACCGCGGCCACGAAAGCGTCAGAGGCCGCCACTTCAGCACGAGATGCGGTGGCCTCAAAAGAGGCAGCAAAATCATCAGAAACGAACGCATCATCAAgtgc                                                                                                                                >  1:233441/5‑248 (MQ=255)
                                                                                  aGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCAACATCTGCATCCACCGCGACCACGAAGGCATCAGAAGCTGCGACCTCGGCCCGGGATGCGGCGGCCTCAAACGAAGCGGCAAAATCATCAGAAACGAACGCATCATCAAGCGCCAGTAGTGCAGCTTCCTCGGCAAcgg                                                                                                      >  1:132140/1‑251 (MQ=255)
                                                                                     ggaaaaaaGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCAACCGCGGCCACGAAAGCGTCAGAGGCCGCCACTTCAGCACGAGATGCGGTGGCCTCAAAAGAGGCAGCAAAATCATCAGAAACGAACGCATCATCAAGTGCCGGTCGTGc                                                                                                                       >  1:110498/4‑231 (MQ=255)
                                                                                                 cgcagccgCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGGGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGAGGCCGCCACTTCAGCACGAGATGCGGTGGCCTCAAAAGAGGCAGCAAAATCATCAGAAACGAACGCATCATCAAGTGCCGGTCGTGCAGCTTCCTCGGCAACGGCGGCAGAAAATTctn                                                                                       <  1:55440/244‑3 (MQ=255)
                                                                                                          agagTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGAGGCCGCCACTTCAGCACGAGATGCGGTGGCCTCAAAAGAGGCAGCAAAATCATCAGAAACGAACGCATCATCAAGTGCCGGTCGTGCAGCTTCCTCGGCAACGGCGGCAGAAAATTctgccagggcgg                                                                              <  1:49061/251‑12 (MQ=255)
                                                                                                                                 ccaccaGTGCCGGTGAGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACACTCAGCCGCCACGTCTGCCTCAAACGCGGCCACAAACGCGTCAGAGGCCGCCACTTCAGCACGAGATGCGGTGGCCTCAAAAGAGGCAGCAAAATCATCAGAAACGAACGCATCATCAAGTGCCGGTCGTGCAGCTTCCTCGGCAACGGCGGCAGAAAATTCTGCCAGGGCGGCAAAAACGACCGAGACGAATGcc                                                       >  1:84057/1‑251 (MQ=255)
                                                                                                                                 ccaccaGAGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCCACCGCGACCACGAAGGCATCAGAAGCTGCGACCTCGGCCCGGGATGCGGCGGCCTCAAAAGAAGCGGCAAAATCATCAGAAACGAACGCATCATCAAGCGCCAGTAGTGCAGCTTCCTCGGCAAc                                                                                                        >  1:178236/1‑202 (MQ=255)
                                                                                                                                                                aaCGAATGCTTCAGCGGCACGACAATCAGCAGCCACATCGGCATCCCCCGCGACCACTAAGGCATCAGAAGCGGCGACCGCGGCCCGGGATGCGGCGGCCTCAAAAGAAGCGGCAAAATCATCAGAAGCGAACGCATCAGCAAGCGCCAGTAGTGCAGCTTCCTCGGCAACGTCGTCAGGAAATTCCACGAAGGCGTCAAAAACGTCCGAGACGAACGCCAGGTCTTCTGAAACGGCAGCGGGACAGAgcn                        <  1:46761/251‑2 (MQ=255)
                                                                                                                                                                                       aaTCAGCAGCCACATCTGCATCCACCGCGACCACGAAGACATCAGAAGCTGCGACCTAGGCCCGCGATACGGCGCCCTCAAAAGAAGCGACAAAATAATCCGAAACGAAAGCATCATCAAGCGCAAGTCGTGCAGCTTCCTCGGCAACGGAGGCAGGAAATTCCGCGAAGGCGGCAAAAACGTCCGAGACGAACGCCAGGTCTTCTGAAACGGCAGGGGGCCAGAGCGACTCGGCTGCGGCAGGCTCaaa  >  1:220550/1‑250 (MQ=255)
                                                                                                                                                                                                                                                 |                                                                                                                                                                                               
CCAGCACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACGGCATCAACAAAGGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCCACCGCGACCACGAAGGCATCAGAAGCTGCGACCTCGGCCCGGGATGCGGCGGCCTCAAAAGAAGCGGCAAAATCATCAGAAACGAACGCATCATCAAGCGCCAGTAGTGCAGCTTCCTCGGCAACGGCGGCAGGAAATTCCGCGAAGGCGGCAAAAACGTCCGAGACGAACGCCAGGTCTTCTGAAACGGCAGCGGGACAGAGCGCCTCGGCTGCGGCAGGCTCAAA  >  NC_000913/1429512‑1429944

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑