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%	30.2 / NA	11	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 (4/7);  total (4/7)

ATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAGAACACGGCAGCCGCGAA  >  NZ_CP009273/1423528‑1423688                                                                           |                                                                                       aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                                         <  1:117105/90‑1 (MQ=255) aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                                         >  1:374266/1‑90 (MQ=255) aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                                         <  1:390432/90‑1 (MQ=255) aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                                         >  2:205767/1‑90 (MQ=255)  ttACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGcc                                                                        <  1:24250/90‑1 (MQ=255)       gtgtATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGtttt                                                                   >  1:198319/1‑90 (MQ=255)           aTGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAAc                                                               <  1:196694/90‑1 (MQ=255)               aGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGAt                                                           <  2:222586/90‑1 (MQ=255)                                cGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGgcgc                                          >  2:96966/1‑90 (MQ=255)                                                     ccATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGcac                     <  1:205767/90‑1 (MQ=255)                                                                        ccGCCCTGAGGCTCTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGAACAGAACACGGCAGCCGCgaa  <  1:233713/90‑1 (MQ=255)                                                                           |                                                                                       ATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAGAACACGGCAGCCGCGAA  >  NZ_CP009273/1423528‑1423688

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑