Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,429,5150GA53.8% ‑6.1 / 10.8 13S156N (AGC→AAC) stfRputative prophage side tail fiber protein StfR
Reads supporting (aligned to +/- strand):  ref base G (2/4);  new base A (6/1);  total (8/5)
Fisher's exact test for biased strand distribution p-value = 1.03e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.39e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

ACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAGAACACGGCAGCCGCGAAGAAGTCAGCCAGTGATGCCAGCACATCAGCCCGTGAGGCGGCAACCCATGCGGCTGATGCTGCGGACTCAGCACGCGCAGCCAGCACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACGGCATCAACAAAGGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCC  >  NC_000913/1429294‑1429717
                                                                                                                                                                                                                             |                                                                                                                                                                                                          
accggggaCGCTGAATGATTTTCTCTGTGCCATGACGGAGGATGAGGCCCGGCCGGAGGTGCTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAAGCAGCCGGCGATGCCAGTGCATCAGCTGCTCAGGTCGCGGCCCTTGTGACTGATGCAACTTACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCatcgtcag                                                                                                                                                                               <  1:151136/244‑3 (MQ=255)
              aTGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCAGAGGCACTGCGCCGTTTTGAACTGATGGCGGAAGAGGTGGCGCGCAACGCGTGCGCGGTGGCACAGAACACGGCAGCCGCGAAGAAGTCAGCCAGAGATGCCAGCACATCAGCCCGTGCGGAGGCAAACCATGCGGCTGATGCTGCGGACTCAGCACCCGCAGCCAACACGACAGCCGGACAGCCCGCGCCGTCGGCTCAGTCAGCGTCt                                                                                                                                                                 >  1:162046/1‑251 (MQ=255)
                                   cGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGACCTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACCGAACACGGCAGCCGCGAAGAAGTCAGCCAGTGATGCCAGCACATCAGCCCGTGAGGCGGCAACTCATGCGGCTGATGCTGCGGACTCAGCACGCGCAGCCAACACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACGGCATc                                                                                                                                             >  1:321078/1‑250 (MQ=255)
                                         atgatgCCCGGCCGGAGGTGCTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGCTGCTCAGGTCGCGGCCCTTGTGACTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAg                                                                                                                                      <  1:109473/251‑1 (MQ=255)
                                                             cTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGCTGCTCAGGTCGCGGCCCTTGTGACTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCTGAAGCGGCATCAGCAAAGGCCACTg                                                                                                                               <  1:107078/238‑1 (MQ=255)
                                                                ngtcgtcttGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGCTGCTCAGGTCGCGGCCCTTGTGACTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGcggaaaaaagagc                                                                                                               >  1:197770/8‑239 (MQ=255)
                                                                                                gcgTAACGCGTCCGCGGTGGCACAGAACACGGCAGCCGCGAAGAAGTCAGCCAGTGATGCCAGCACATCAGCCCGTGAGGCGGCAACCCATGCGGCTGATGCTGCGGACTCAGCACGCGCAGCCAACACGTCAGCCGGACAGGCCGCGTCGTCGTCTCAGTCAGCGTCTGCCATCGCATGAACGGCATCAACAAATGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGcggcgg                                                                               <  1:208146/251‑1 (MQ=255)
                                                                                                                                                 gCCAGTGATGCCAGCACATCAGCCCGTGAGGCGGCAACCTATGCGGCTGCTGCTGTGGACTCAGCACGCGCAGCCAACACGTCAGCCGGACa                                                                                                                                                                                             >  1:170517/1‑92 (MQ=255)
                                                                                                                                                  ccAGTGATGCCAGCACATCAGCCCGTGAGGCGGCAACCCATGCGGCTGCTGCTGCGGACTCAGCACGCGCAGCCAACACGTCAGCAGGACAGGCCGCGTCGTGGGCTCAGTCAGCGTCTTCCCGCGCAGGAACGCCTTCAACAAAGGCCATTGAAGCATCAAAAAGTGCTGCCGCTGCAGTGTCCTCACAAAGCGCGGCGGCCACCAGTGCCGGTGTGGCGCAAACGTCAGAAACGAATGCTTCCGCGTc                              >  1:305743/1‑250 (MQ=255)
                                                                                                                                                                 caTCAGCCCGTGAGGCGGCAACCCATGCGGCTGATGCTGCGCACTCAGCACGCGCAGCAAACACGTCAACCGGACAGAACCCGTAGTCGGATCAGTCAGCGTCTTCAAAAGCAGGAACGGCATCAACaaa                                                                                                                                       >  1:301710/1‑130 (MQ=255)
                                                                                                                                                                              ngcggcAACCCATGCGGCTGATGCTGCGGACTCAGCACGCGCAGCCAACACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACGGCATCAACAAAGGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGCATGCTTCCGCGTCCCTACAATCCGCAGCCACATCTGCATcc  >  1:196445/2‑250 (MQ=255)
                                                                                                                                                                                       ccttgtgactgatgcaactgACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGcc     >  1:10465/20‑237 (MQ=255)
                                                                                                                                                                                                    nnnnnnnnnncANNNNNCGCNGCCAGCACGTCCGCCGGACAGGCTGCAGCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGcca                                                                            <  2:197770/144‑1 (MQ=255)
                                                                                                                                                                                                                             |                                                                                                                                                                                                          
ACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAGAACACGGCAGCCGCGAAGAAGTCAGCCAGTGATGCCAGCACATCAGCCCGTGAGGCGGCAACCCATGCGGCTGATGCTGCGGACTCAGCACGCGCAGCCAGCACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACGGCATCAACAAAGGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCC  >  NC_000913/1429294‑1429717

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑