Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,429,111	0	A	C	56.2%	1.8 / 12.7	16	T21T (ACA→ACC)	stfR	putative prophage side tail fiber protein StfR
Reads supporting (aligned to +/- strand):  ref base A (2/5);  new base C (7/2);  total (9/7)
Fisher's exact test for biased strand distribution p-value = 1.26e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTACAGCATGGACGTTGAGT‑ACGGTCAGTACAGCGTTATTCTGTTGGTGGAAGGATTCCCGCCGTCACATGCCGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGC  >  NC_000913/1428886‑1429360                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                           ncgaccgaATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGAGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAAc                                                                                                                                                                                                                                    >  1:45049/2‑250 (MQ=255)                                 tGAAGGCCCCGGCAGTGGCGACGGGCGCACTGACGGTTTCATCGTGGGTTTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTAGGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTCCAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTGGCCtn                                                                                                                                                                                                    <  1:133480/250‑2 (MQ=255)                                                  gCGACTGGCGTACTGACGGATTCATCGTTGGGGTCGGTTATAAATTCTGATTAGCCAGGTAACACCGTGTTATGACAGCCCGCCGGACCCGGTGGGCTTTTTTGTGGGGTGAATATGGCAGTACAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGTGGTGAACACGGTGGGCTCAGAGAATCCGGATGAAGc                                                                                                                                                                                  >  1:197290/1‑251 (MQ=255)                                                            cACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGACGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTTAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTa                                                                                                                                                                         >  1:119838/1‑250 (MQ=255)                                                                         aTCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACATCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGTTGAATATGGCAGTAAAAATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAAACCAGCTGAAAGCAAAACGTAACAGCACCACTGTGGTGGTGAACACCCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTGACAGCATGGACGTTg                                                                                                                                                           <  1:212929/251‑1 (MQ=255)                                                                                                       gCCAGGTAACACAGTGTTATGACAGCCCGCCGGAACCGGTGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGTGGTGAACACGGTGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGCATGGATGTGGAGT‑ACGGTCAGTACAgtgtcatcctgcagg                                                                                                                            >  1:85562/1‑237 (MQ=255)                                                                                                                                    ccggaaccggtgggCTTTTTTGTGGGGTGAATATGGCAGGAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACTGTGGTGGTGAACACGGTGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGc                                                                                                                                                                     <  1:148227/171‑1 (MQ=255)                                                                                                                                      gnaaccggtgggCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCCCGGTGGTGGGGAACACGGGGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGCATGGatgtgg                                                                                                                                                           >  1:170339/10‑185 (MQ=255)                                                                                                                                                          tgGGGCGAATATGGCAGTAAAGATTTCAGGAGTACTGAAAGACGGCACAGGAAAAACGGTACAGAACTGCACCATTCAGATGAAAGCCAGACGTAACAGCACCACGGTGGTGGTGAACACGGGGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGCATGGATGTGGAGT‑ACGGTCAGTACAGTGTCATACTGCAGGTTGACGGTTTTCCACCATCGCACGCCGGGACCATCACCGTGTATGAAGAtt                                                                         >  1:65686/1‑251 (MQ=255)                                                                                                                                                             ggTGANNATNNNAGNNAAGATTTCAGGTGTACTGAAAGANGGCACAGGAAAACCGGTACAGAACTGCACNANCNAGCTNNAAGNAAAACGTAACNGCACCACGGTGGTGGTGAACACGCTGGCCTCAGAAAATCCGGCTGAAGNCNGGCGTTACAGCATGGACGTTGAGT‑ACGGTCANTACAGCGTTATTCTGTTGGTGGAANGATTNncgncnnnnnnnnnn                                                                                                  >  2:159747/1‑213 (MQ=255)                                                                                                                                                                       gCAGTAAAGATTTCAGGAGTCCTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGTGGTGAACACGGTGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTAc                                                                                                                                                                        >  1:109053/1‑144 (MQ=255)                                                                                                                                                                                         gtccTGAAAGACGGCACAGGAAAACCGGTACAGAACGGCCCCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGTGGTGAACACGGTgggct                                                                                                                                                                                                     <  1:121742/94‑4 (MQ=255)                                                                                                                                                                                                    aggCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGTGGTGAACACGGTGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGCATGGATGTGGAGT‑ACGGTCAGTACAGTGTCATCCTGCAGGTTGACGGTTTTCAACCATCGCACGCCGGGACCATCACCGTGTATGAAGATTCACAACCGGGGACGCTGAATGATTTTCTCTGTGCCATGACgg                               >  1:15394/2‑251 (MQ=255)                                                                                                                                                                                                      gCACAGGAAAACCGGTACAGAACTGCACCATTCAGCTGAAAGCCAGACGTAACAGCACCACGGTGGAGGTGAACACGGAGGGCTCAGAGAATCCGGATGAAGCCGGGCGTTACAGCATGGATGTGGAGT‑ACGGTCAGTACAGTGTCATCCTGCAGGTTGACGGTTTTCCACCATCGCACGCCGGGACCATCACCGTGTATGAAGATTCACAACCGGGGACGCTGAATGATTTTCTCTGTGCCa                                     >  1:193195/1‑243 (MQ=255)                                                                                                                                                                                                             aaaaCCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGGAACAGCACCACGGTGGTGGTGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTACAGCATGGACGTTGAGt                                                                                                                                                        <  1:188498/122‑1 (MQ=255)                                                                                                                                                                                                               aaCCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGGGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTACAGCATGGACGTTGAGT‑ACGGTCAGTACAGCGTTATTCTGTTGGTGGAAGGATGCCCGCCGTCACATGCCGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGcc                    <  1:159747/251‑1 (MQ=255)                                                                                                                                                                                                                        aGAACTGCACAAACCGGCGGAAAGCAAAAGGTAGCAGCACCACGGGGGTGGTGAACGCGGTGCCCTCAGAAAATCCGGATGAATCCGTCTGTTACAGCATGGACGTTG‑GTGAGGGTAATTATGGCGTCACTGGGTTTGTGGAAGGATTCCCGCCGTCACATGCCGGGGCTATTGCCGTGTATGAAGATTCTCAGCCCGGGACGCTGAATGATTTTCTCGGTCCCAGGACGGAGGATGATGCCCGTCCGGAg           <  1:198554/251‑1 (MQ=255)                                                                                                                                                                                                                                 caATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTACAGCATGGACGTTGAGT‑ACGGTCAGTACAGCGTTATTCTGTTGGTGGAAGGATTCCCGCCGTCACATGCCGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTgcgc  >  1:169723/1‑251 (MQ=255)                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                           CCGACCGAATCCGTGGCCATTGATATTGCTTATGAAGGCCCCGGCAGTGGCGACTGGCGCACTGACGGTTTCATCGTGGGTGTCGGTTATAAGTTCTGATTAGCCAGGTAACACAGTGTTATGACAGCCCGCCGGTTCAGGCGGGCTTTTTTGTGGGGTGAATATGGCAGTAAAGATTTCAGGTGTACTGAAAGACGGCACAGGAAAACCGGTACAGAACTGCACAATCCAGCTGAAAGCAAAACGTAACAGCACCACGGTGGTGGTGAACACGCTGGCCTCAGAAAATCCGGATGAAGCCGGGCGTTACAGCATGGACGTTGAGT‑ACGGTCAGTACAGCGTTATTCTGTTGGTGGAAGGATTCCCGCCGTCACATGCCGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGC  >  NC_000913/1428886‑1429360

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: ‑