Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,430,115	0	C	T	63.2%	7.5 / 15.8	19	S356F (TCC→TTC)	stfR	putative prophage side tail fiber protein StfR
Reads supporting (aligned to +/- strand):  ref base C (3/4);  new base T (9/3);  total (12/7)
Fisher's exact test for biased strand distribution p-value = 3.26e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.40e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

ACGGCAGCGGGACAGAGCGCCTCGGCTGCGGCAGGCTCAAAAACAGCGGCTGCGTCGTCTGCCAGTGCAGCGTCAACAAGTGCCGGGCAGGCCTCAGCCAGTGCCACCGCCGCCGGAAAATCGGCAGAAAGCGCCGCATCGTCTGCTTCAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTCCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGACCAGACAAGCGTCAGCAGCGAAGAGCAGCGCCACGACGGCATCCACGAAGGCGACAGAGGCTGCTGGCAGTGCGACGGCGGCAGCTCAGAGCAAAAGTAC  >  NC_000913/1429904‑1430349                                                                                                                                                                                                                    |                                                                                                                                                                                                                                           aCGGCAGCGGGACAGAGCGCCTCGGCTGCGGCAGGCTCAAAAACAGCGGCTGCGTCGTCTGCCAGTGCAGCGTCAACAAGAGCCGAGCAGGCCTCAGCCAGTGCCACCGCCGCCGGAAACTCGGCAGAAAGCGCCGCATCGTCTGCTTTAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTTCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCgg                                                                                                                                                                                                      >  1:327149/1‑250 (MQ=255)                                           aCAGCGGCTCCGTCGTCTACCAGGGCATCGTCAACGAGTCCCGGGCAGGCCTCAGCCAGTGCCACCGCCGCCGGAAAATCAGCAGAAAGCGCCGCTTCGTCTGCTTCAACATCCACAACGAAGTCTGGCGAAGCCACAGAACAGGCCAGCTCAGCAGCGAGGTCTGCTTTCGCATCGAATACATCCGAAACTAACGCGAAAGCGTCGGAAACTAGCGCAGAATCCTCAAAAACGGCTGCCTCATCGTCAGc                                                                                                                                                           <  1:46259/251‑1 (MQ=255)                                                             gCCAGTGCAGCGTCAACAAGTGCCGGGCAGGCCTCAGCCAGTGCCACCGCCGCCGGAAAATCGGCAGAAAGCGCCGCATCGTCTGCTTCAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTTCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATc                                                                                                                                         >  1:138916/1‑251 (MQ=255)                                                                                      ngCAGGCCTCAGCCAGTGCCACCGCCGCCGGAAAATCGGCAGAAAGCGCCGCATCGTCTGCTTCAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTCCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGc                                                                                                                                                           >  1:36923/2‑208 (MQ=255)                                                                                             ntCAGCCAGTGCCACCGCCGCCGGAAAATCGGCAGAAAGCGCCGCATCGTCTGCTTCAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTCCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGcc                                                                                                                                                                      >  1:202522/2‑190 (MQ=255)                                                                                                 gCCAGTGCCACCGCCGCCGGAAAATCGGCAGAAAGCGCCCCCTCGTCTGCCTCAACAGCCACCACGACGGCTGGCGAACACACGGACCAGGCCAGCGAAGCAGCACAGTCTCCTTTCGCAGAGAAGACATCCGCAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGTCGGCGTCATCGGCATCCTAGGCGTCTGCTTCCACAGATGCGGCGa                                                                                                      >  1:277281/1‑250 (MQ=255)                                                                                                   cAGTGCCACCGCCGCCGGAAAATCGGCAGAAAGCGCCGCATCGTCTGCTTCAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTCCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGAcc                                                                                                    >  1:103908/1‑250 (MQ=255)                                                                                                                           ggCAGAAAGCGCCGCATGGTCTGCTTCAACAGCCACAACGAAGGCTGGCGAATCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGATTTCGCAGCGAAGACATCCGAAACTAACGCGAAAGCGTCGGAAACAAGCGCAGACTCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCGTCAAAAGATGAGGCGACCAGACAAGCGTCAGCAGCGAAGagcn                                                                           <  1:202085/251‑2 (MQ=255)                                                                                                                             cAGAAAGCGCCGCATCGTCTGCTTCAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGATGTCTGCGTCCGCAGCGAAGACATCC‑AAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTTGCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCAGCATCGGCGTCTTCTTCAAAAGAGGAGGCGACCAGACAAGCGTCAGCAGCGAAGAGCAgcg                                                                        <  1:208072/251‑1 (MQ=255)                                                                                                                                         nntCNNNNNCTANAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTCCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGcc                                                                                                                                                                      <  2:202522/144‑1 (MQ=255)                                                                                                                                                                  gAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTCCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCTCATCGTCAGCCAGGTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTGCAAAAGATGAGTCCACCAGACAAGCGTCAGCAGCGAAGAGCAGCGCCACGACGGCATCCACGAAGGCGACAGAGgc                                         <  1:223047/246‑1 (MQ=255)                                                                                                                                                                         ggCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTTCGCAGCGAAGACATCCGCAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGATGCCGCCTCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGACCAGACACGCGTCAGCAGCGAag                                                                               >  1:268170/1‑201 (MQ=255)                                                                                                                                                                          gCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTTCGCAGCGAAAACATCCGAAACGCACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGACAGTTCGGCGGCGTCATCGGca                                                                                                                                     >  1:184272/1‑146 (MQ=255)                                                                                                                                                                                  gcTGAACAGGCCAGCGCAGCAGCGAGGTCTGCGTTCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGAGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGACCAGACAAGCGTCAGCAGCGAAGAGCAGCGCCACGACGGCATCCACGAAGGCGACAGAGGctgctg                                    <  1:1714/234‑1 (MQ=255)                                                                                                                                                                                  aCTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTTCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAg                                                                                                                                                                                          >  1:138518/1‑85 (MQ=255)                                                                                                                                                                                     gAACAGGCCAGCGCAGCAGCGAGGTCTGCTTCCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGACCAGACAAGCGTCAGCAGCGAAGAGCAGCGCCACGACGGCATCCACGAAGGCGACAGAGGCTGCTGGCAGTGCGAcggcggn                    <  1:79097/248‑2 (MQ=255)                                                                                                                                                                                        cAGGCCAGCGCAGCAGCGAGGTCTGCTTTCGCAGCGAAGACATCCGAACCGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGACCAGACAAGCGTCAGCAGCGAAGAGCAGCGCCACGACGGCATCCACGAAGGCGACAGAGGCTGCTGGCAGTGCGACGGCGGCAGCTc               >  1:150498/1‑250 (MQ=255)                                                                                                                                                                                             cAGCGCAGCAGCGAGGTCTGCTTTCGCAGCGAAGACATCCGAAACGAACGCGACAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGACCAGACAAGCGTCAGCAGCGAAGAGCAGCGCCACGACGGCATCCACGAAGGCGACAGAGGCTGCTGGCAGTGCGAcggcg                      >  1:320703/1‑238 (MQ=255)                                                                                                                                                                                                    ncngcNAGGTCNGCTTNCGCAGCGAAGACATCNGAAACGAACGCGAAAGCGTNNGNAACAANCGCAg                                                                                                                                                                                          <  2:138518/66‑1 (MQ=255)                                                                                                                                                                                                    gcagcGAGGTCTGCTTTCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGACCAGACAAGCGTCAGCAGCGAAGAGCAGCGCCACGACGGCATCCACGAAGGCGACAGAGGCTGCTGGCAGTGCGACGGCGGCAGCTCAGAGCAAAAGTAc  >  1:244046/1‑251 (MQ=255)                                                                                                                                                                                                                    |                                                                                                                                                                                                                                           ACGGCAGCGGGACAGAGCGCCTCGGCTGCGGCAGGCTCAAAAACAGCGGCTGCGTCGTCTGCCAGTGCAGCGTCAACAAGTGCCGGGCAGGCCTCAGCCAGTGCCACCGCCGCCGGAAAATCGGCAGAAAGCGCCGCATCGTCTGCTTCAACAGCCACAACGAAGGCTGGCGAAGCCACTGAACAGGCCAGCGCAGCAGCGAGGTCTGCTTCCGCAGCGAAGACATCCGAAACGAACGCGAAAGCGTCGGAAACAAGCGCAGAATCCTCAAAAACGGCTGCCGCATCGTCAGCCAGTTCGGCGGCGTCATCGGCATCATCGGCGTCTGCTTCAAAAGATGAGGCGACCAGACAAGCGTCAGCAGCGAAGAGCAGCGCCACGACGGCATCCACGAAGGCGACAGAGGCTGCTGGCAGTGCGACGGCGGCAGCTCAGAGCAAAAGTAC  >  NC_000913/1429904‑1430349

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑