Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,423,602	T→C	R99R (CGT→CGC)	stfR →	prophage tail fiber N‑terminal domain‑containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,423,602	0	T	C	100.0%	21.2 / NA	8	R99R (CGT→CGC)	stfR	prophage tail fiber N‑terminal domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (3/5);  total (3/5)

ATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGT  >  NZ_CP009273/1423528‑1423664                                                                           |                                                               aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                 <  1:169299/90‑1 (MQ=255) aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                 <  1:351685/90‑1 (MQ=255)       gtgtATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGtttt                                           >  1:447081/1‑90 (MQ=255)         gtATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGa                                         >  2:111608/1‑90 (MQ=255)           aTGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAAc                                       <  1:111608/90‑1 (MQ=255)                           cGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGt                       >  2:106757/1‑90 (MQ=255)                                             tctcGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCcgc     <  2:447081/90‑1 (MQ=255)                                                cGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGt  <  2:26291/90‑1 (MQ=255)                                                                           |                                                               ATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGT  >  NZ_CP009273/1423528‑1423664

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑