Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,429,0690TA55.6% ‑4.0 / 19.8 21G7G (GGT→GGA) stfRputative prophage side tail fiber protein StfR
Reads supporting (aligned to +/- strand):  ref base T (5/3);  new base A (3/7);  total (9/12)
Fisher's exact test for biased strand distribution p-value = 3.42e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.08e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGTGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTACAGCATGGACGTTGAGTACGGTCAGTACAGCGTTATTCTGTTGGTGGAAGGATTCCCGCCGTCACATGCCGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCT  >  NC_000913/1428832‑1429305
                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                            
gaCGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGTGCAGTTTAACCCGACCGAAGCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGAc                                                                                                                                                                                                                                  <  1:18449/250‑1 (MQ=255)
                                                                          tgagatTGCTTAGGAAGGCCCCGGGAGTGGCGACTGCCGCACTGACGGTTTCATCGTGGGTGTCGTTAATAAGTTCGGATTAGCCAGGTAAACCAGTTTTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATAGGGCATTAAAGATGTCAGGGGTACTTAAAGACGGCCCAGTAAAACCGGTACAGAACGGCACAACGCAGCTGAAAGCAAAACTTAACAGCCCCACGGTGGTGGTGaa                                                                                                                                                        <  1:167834/246‑1 (MQ=255)
                                                                                 gCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGCTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGTTCCGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGAACAGGAACACCGGTACAGAACTGCACACTCCAGCTGACAGCAAAACGtc                                                                                                                                                                              >  1:181552/1‑220 (MQ=255)
                                                                                     aTGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGa                                                                                                                                                         >  1:18462/1‑238 (MQ=255)
                                                                                          ggctccGGCAGTGGCGACTGGCGTACTGACGGATTCATCGTTGGGGTCGGTTATAAATTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGAACCGGTGGGCTTTTTTGGGGGGTGAATATGGCAGTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGc                                                                                                                                                                         <  1:274910/213‑1 (MQ=255)
                                                                                            ncccNGNNGNNGCGNCTGGCGTACTGACGGATTCATNNTTGGGGTCGNTTATAAATGCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGAACCNGTGGGCTTTNNTGNGGGGTNANNNTNNNAGNAAAGATTTCAGGAGTCCTGNAANNCGGCACNGGAAAACCGGTACAGAACTGcaccat                                                                                                                                                                                                  <  2:71760/189‑4 (MQ=255)
                                                                                            ctccGGCAGTGGCGACTGGCGTACTGACGGATTCATCGTTGGGGTCGGTTATAAATTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGACCCGGTGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGAGTCCTGCAAGACGGCACAGGAAAACCGGTACAGAACTGcaccat                                                                                                                                                                                                  >  1:71760/3‑187 (MQ=255)
                                                                                                             ggCGCACTGACGGTTTCAACGTGGGTGTCGGTTATAAGTGCTGATTAGCCAGGGAACACAGTGTTAGGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGTGTGAAGATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTg                                                                                                                                                                                                        <  1:317879/167‑1 (MQ=255)
                                                                                                                       cggattCATCGTTGGGGTCGGTTATAAATTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGAACCGGTGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGTGGTGAACACGGTGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGCATg                                                                                                          <  1:292511/247‑1 (MQ=255)
                                                                                                                                                                     cacaGTGTTATGACAGCCCGCCGGAACCGGTGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTAAGGAGTCCTGACAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACggtggtgg                                                                                                                                                            >  1:324851/1‑155 (MQ=255)
                                                                                                                                                                         gtgtTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTTTGGGGGGAATATGGCGGTAAAGATTTCCGGGGTACTGAAAGACGGCACAGGAAACCCGGTACAGAACTGCAAAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGGGGTGGAGaa                                                                                                                                                        >  1:102211/1‑155 (MQ=255)
                                                                                                                                                                           gtTATGACAGCCCGCCGGAACCGGTGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGANNACCGGtnn                                                                                                                                                                                                               >  2:3097/1‑96 (MQ=255)
                                                                                                                                                                                                      gCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGAGGCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGcacca                                                                                                                                                                                                   <  1:68921/83‑3 (MQ=255)
                                                                                                                                                                                                                ggggTNAATATNGNNGTAAAGATTTAAGGTGTACNGAAAGACGGCACAGGNAAACNGGTACNGANc                                                                                                                                                                                                          >  2:135659/1‑66 (MQ=255)
                                                                                                                                                                                                                ggggTGAATATGGCAGGAATGATTTCAGGGGTACTGAAAGACGGCACATGAAAACCTGTACAGAACTGCACAATCCAGCTGAAAGCa                                                                                                                                                                                     <  1:135659/87‑1 (MQ=255)
                                                                                                                                                                                                                          tGGCAGTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGGGGTGAACACGGTGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGCATGTATGTGGAGTACGGTCAGTACAgtgtcatcctgcagg                                                                     <  1:85965/189‑15 (MQ=255)
                                                                                                                                                                                                                           ngCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTgg                                                                                                                                                >  1:194900/2‑113 (MQ=255)
                                                                                                                                                                                                                           ngCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGCGGAGGTGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTACAGCATGGACGTTGAGTACGGTCAGTACAGCGTTATTCTGTTGGTGGAAGGATTCCCGCCGTCACATGCCGGGACCATTACCGTGTATGAAGATTCTCAACCCGGt       >  1:37631/2‑250 (MQ=255)
                                                                                                                                                                                                                           ggCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTgg                                                                                                                                                <  2:194900/113‑1 (MQ=255)
                                                                                                                                                                                                                              aGTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGTGGGGAACACGGTGGGCTCAGAGAATCTGGATTAAGCCGGGCGTTACAGCATGGATGTGGAGTACGGTCAGTACAgtgtcatcctgca                                                                       <  1:173338/183‑13 (MQ=255)
                                                                                                                                                                                                                               gTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGGAACAGCACCACGGTGGTGGTGAACACGGTGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGCATGGATGTGGAGTACGGTCAGTACAGTGTCATCCTGCAGGTTGACGGTTTTCCACCATCGCACGCCGGGACCATCACCGTGTATGAAGATTCACAACCGGGGACGCt  <  1:3097/251‑1 (MQ=255)
                                                                                                                                                                                                                                             |                                                                                                                                                                                                                                            
GACGGTCGCCACAGCAACACGTCTCTGGCGTGGGGAGCTGGCGTGCAGTTTAACCCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTACAGCATGGACGTTGAGTACGGTCAGTACAGCGTTATTCTGTTGGTGGAAGGATTCCCGCCGTCACATGCCGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCT  >  NC_000913/1428832‑1429305

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑