Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,759,929	T→C	H315H (CAT→CAC)	yfjI →	CP4‑57 prophage, uncharacterized protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,759,929	0	T	C	100.0%	61.1 / NA	20	H315H (CAT→CAC)	yfjI	CP4‑57 prophage, uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (13/7);  total (13/7)

TCCAACCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAGGATTATGCTTCTAAAATGGCGGAGAACATGGCGAGG  >  NC_000913/2759795‑2760031                                                                                                                                       |                                                                                                       tCCAACCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGa                                                                                                    <  1:15848/139‑1 (MQ=255)     aCCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGa                                                                                                <  2:457441/139‑1 (MQ=255)     aCCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGa                                                                                                <  2:345927/139‑1 (MQ=255)                    aTGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGt                                                                                 <  1:310794/139‑1 (MQ=255)                     tGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTc                                                                                >  1:347300/1‑139 (MQ=255)                               ccGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGaaa                                                                      >  2:276339/1‑139 (MQ=255)                                 ggTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATg                                                                    >  2:136520/1‑139 (MQ=255)                                      ttCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAAt                                                               <  2:60463/139‑1 (MQ=255)                                        cACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTa                                                                                          >  2:141045/1‑110 (MQ=255)                                        cACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTa                                                                                          <  1:141045/110‑1 (MQ=255)                                                         aaTTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGAt                                            >  2:296073/1‑139 (MQ=255)                                                                aaTGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAgg                                     >  2:411231/1‑139 (MQ=255)                                                                      agCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAGGATTATg                               >  2:320720/1‑139 (MQ=255)                                                                             ttAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAGGATTATGCTTCTaa                        >  1:228512/1‑139 (MQ=255)                                                                                aaaTTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAGGATTATGCTTCTAAAAt                     >  1:291186/1‑139 (MQ=38)                                                                                  aTTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAGGATTATGCTTCTAAAATgg                   >  2:435173/1‑139 (MQ=37)                                                                                       tGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAGGATTATGCTTCTAAAATGGCGgag              >  1:3714/1‑139 (MQ=18)                                                                                                   cATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGAtttt                                         <  1:546309/100‑1 (MQ=14)                                                                                                   cATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGAtttt                                         >  2:546309/1‑100 (MQ=14)                                                                                                   cATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACACTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAGGATTATGCTTCTAAAATGGCGGAGAACATGGCGAgg  >  2:447718/1‑139 (MQ=11)                                                                                                                                       |                                                                                                       TCCAACCCAATTTTTTCAAATGAACATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGATTGGCCTTCTTTATGATTTTAAGGATTATGCTTCTAAAATGGCGGAGAACATGGCGAGG  >  NC_000913/2759795‑2760031

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑