Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,759,898	G→A	C305Y (TGC→TAC)	yfjI →	CP4‑57 prophage; protein YfjI

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,759,898	0	G	A	100.0%	80.1 / NA	25	C305Y (TGC→TAC)	yfjI	CP4‑57 prophage; protein YfjI
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (16/9);  total (16/9)

ATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGAT  >  NC_000913/2759820‑2759973                                                                               |                                                                            aTTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTAcc                                                                           >  2:444533/1‑81 (MQ=255)    tGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTcc                                                                        >  2:444535/1‑81 (MQ=255)    tGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTcc                                                                        >  2:444528/1‑81 (MQ=255)      ccGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCg                                                                       <  2:444508/80‑1 (MQ=255)      ccGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGa                                                                      <  1:444509/81‑1 (MQ=255)            tttCACCAACGTCTTATGGAAATTGTTAATAAGAGCATTATTAAAATTAATGAAAATAATCGCATCTACCTCCGATtctc                                                                 <  2:444510/80‑1 (MQ=255)               cACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTgc                                                              <  2:444511/80‑1 (MQ=255)                   aaCGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTgcagaag                                                         >  2:444542/1‑81 (MQ=255)                     cGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTgcagaag                                                         >  1:444538/1‑79 (MQ=255)                        cTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTgcagaagcaga                                                     >  1:444558/1‑80 (MQ=255)                           aTGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGa                                                 >  1:444539/1‑81 (MQ=255)                           aTGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCACCTACCTCCGATTCTCTGCAGAAGCAGAAAGa                                                 >  2:444543/1‑81 (MQ=255)                                     ttAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATc                                        >  2:444537/1‑80 (MQ=255)                                       aaTGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGaa                                     >  2:444532/1‑81 (MQ=255)                                        aTGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAAt                                    <  2:444512/81‑1 (MQ=255)                                             agCATCATTAAAATTAATGAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTa                                >  1:444547/1‑80 (MQ=255)                                                         aTTAATGAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAg                   >  1:444534/1‑81 (MQ=255)                                                              tGAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGa              <  1:444513/81‑1 (MQ=18)                                                               gAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGa              >  1:444536/1‑80 (MQ=21)                                                               gAAAATAATCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGa              >  1:444531/1‑80 (MQ=21)                                                                  aataatCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAAt           >  2:444541/1‑80 (MQ=21)                                                                     aatCGCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATgag        >  2:444530/1‑80 (MQ=21)                                                                       tCGCATCTACCTCCGATTCTCTGCAGAAGCAAAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAAt     <  2:444514/81‑1 (MQ=255)                                                                         gCATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATg    <  1:444515/80‑1 (MQ=17)                                                                          cATCTACCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGAt  <  1:444516/81‑1 (MQ=14)                                                                               |                                                                            ATTTGCCGGTATTTCACCAACGTCTTATGGAAATTGTTAATGAGAGCATCATTAAAATTAATGAAAATAATCGCATCTGCCTCCGATTCTCTGCAGAAGCAGAAAGACATTGGATCGAATTCTACAACCAGGTCGAGTCAGAAATGAGAATGAT  >  NC_000913/2759820‑2759973

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑