Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	295,941	C→T	V386M (GTG→ATG)	intF ←	putative phage integrase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	295,941	0	C	T	85.7%	13.6 / NA	7	V386M (GTG→ATG)	intF	putative phage integrase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base T (4/2);  minor base G (0/1);  total (4/3)
Fisher's exact test for biased strand distribution p-value = 4.29e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GATCCATGTCTCAATTTTCTCGTGCCATTTTCGTAACAGATCTAACGGACGACGGCGATAGTGTTTTTCGGCAAGAGCGCTGGGTTTGTGTCCCATAATTTGAGCAACAATACCAGTGGGAACTTCAACCCACTCGGCCAAAGTACCAAAACTACGACGTAAACCGTGAAGGCTGATATGTGGTAACTCAGCCAGCACTAATGCTCTGTTGTGCGCTGAACGCGGCTCAATAATTTTGCCACTTTTACTGTTACTTCTGAAAACCCAACCCTCCTTATTTACGTCAGAATTTGGGGATTGCGCTAGTACATTTAACAATTCAGAAACATAAGGAGTGAGAGGGATGATACGTTCACCTTCGATCTTGTCTTTAATTCGCATGCTTG  >  NC_000913/295744‑296129                                                                                                                                                                                                      |                                                                                                                                                                                             gATCCATGTCTCAATTTTCTCGTGCCATTTTCGTAACAGATCTAACGGAAGACGGCGATAGTGTTTTTCGGAACGAGCGCTGGGTTTGTGTCACATACTTTGAGCAACAGTACCAGTGGGAACTTCAACCCACTCGGCCAAAGTCCCAAAACTACGACGTAAACCGTGAAGGCTGCTATGTGGTAACTCAGCCCGCATTaa                                                                                                                                                                                           >  1:110690/1‑201 (MQ=255)                        gCCATTTTCGTAACAGATCTAACGGAAGACGGCGATAGAGTTTTTCGGCAAGACCGCTGGGATTGTGTCCCATAATTAGAGCCACAGTACCAGCGGGAACTTCAACCCCCTCGACCAAAGCACCAAAACTACGACGTAAACCGTGAAGGCTGATATGTGGTAACTCCGCCAGCATTACTGCTCTGTTGTGCGCTGAACGCGGATCAATAATTTTGCCACTTTTACTGTTACTTCTGATAACCCAACcctcc                                                                                                                  >  1:82360/1‑251 (MQ=255)                                cGTAACAGATCTAACGGACGACGGCGATAGTGTTTTTCGGCAAGAGCGCTGGGTTTGTGTCCCATAATTTGAGCAACAATACCAGTGGGAACTTCAACCCACTCGGCCAAAGTACCAAAACTACGACGTAAACCGTGAAGGCTGATATGTGGTAACTCAGCCAGCATTAATGCTCTGTTGTGCGCTGAAcgcg                                                                                                                                                                    <  1:130012/193‑1 (MQ=255)                                                                                                                           cTTCAACCCACTCGGCCAAAGTACCAAAAATACGACGTCAACCGTGAAGGCTGATATGTGGTAACTCAGCCAGCATTAATGCTCTGTTGTGCGCTGAACGCGGCTCAATAATTTTGCCACTTTTACTGTTACTTCTGAAAACCCAACCCTACTTATTTACGTCAGAATTTGGGGATTGCGCTAGTACATTTAACAATTCAGAAACATAAGGAGAGAGAGGGATGATAAGTTCACCTTCGATCTTGTCttt                >  1:163563/1‑250 (MQ=255)                                                                                                                                   cACTCGGCCATAGTACCAAAACTACGACGTAAACCGTTAAGGCTGATATGTGGTAACTCAGCCAGCAGTAATGCTCTGTTGTGGGCGGAACGCGGCTCAATAATTATGCCACTGTTACTGTTACTTCTGAAAACTTAACCCTCCTGATTGACGACAGAATTTTGGGATTGCGCGAGTAGAGTGAACAATTCGGTAACATGAGGAGTGAGAGCGATGATACGTTCACCTTCGATCTTGTCGTTAATGCGCAt       <  1:91031/251‑1 (MQ=255)                                                                                                                                    aCTCGGCCAAAGTACCAAAACTACGACGTAAACCGTGAAGGCTGATATGTGGTAACTCAGCCAGCATTAATGCTCTGTTGTGCGCTGAACGCGGCTCAATAATTTTGCCACTTTTACTGTTGCTTCTGAAAACCCAGCCCTCCTTATTTACGTCAGAATTTGGGGATTGCGCTAGTACATTGAACAATTCAGGAACATAAGGAGTGAGAGGGATGATACGTTCACCTTCGATCTTGTCTTTAATTCGCATg      <  1:74948/251‑1 (MQ=255)                                                                                                                                         nccAAAGTACCAAAACTACGACGTAAACCGTGAAGGCTGATATGTGGTAACTCAGCCAGCATTAATGCTCTGTTGTGCGCTGAACGCGGCTCAATAATTTTGCCACTTTTACTGTTACTTCTGAAAACCCAACCCTCCTTATTTACGTCAGAATTTGGGGATTGCGCTAGTACATTTAACAATTCAGAAACATAAGGAGTGAGAGGGATGATACGTTCACCTTCGATCTTGTCTTTAATTCGCATGCTTg  >  1:105670/2‑250 (MQ=255)                                                                                                                                                                                                      |                                                                                                                                                                                             GATCCATGTCTCAATTTTCTCGTGCCATTTTCGTAACAGATCTAACGGACGACGGCGATAGTGTTTTTCGGCAAGAGCGCTGGGTTTGTGTCCCATAATTTGAGCAACAATACCAGTGGGAACTTCAACCCACTCGGCCAAAGTACCAAAACTACGACGTAAACCGTGAAGGCTGATATGTGGTAACTCAGCCAGCACTAATGCTCTGTTGTGCGCTGAACGCGGCTCAATAATTTTGCCACTTTTACTGTTACTTCTGAAAACCCAACCCTCCTTATTTACGTCAGAATTTGGGGATTGCGCTAGTACATTTAACAATTCAGAAACATAAGGAGTGAGAGGGATGATACGTTCACCTTCGATCTTGTCTTTAATTCGCATGCTTG  >  NC_000913/295744‑296129

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑