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%	32.2 / 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 (5/6);  total (5/6)

CGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAG  >  NZ_CP009273/1423521‑1423671                                                                                  |                                                                      cGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGc                                                               <  1:74968/90‑1 (MQ=255)        aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                        >  1:247979/1‑90 (MQ=255)        aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                        >  2:137731/1‑90 (MQ=255)        aTTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTgcgc                                                        <  2:324186/90‑1 (MQ=255)              gtgtATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGtttt                                                  >  1:348413/1‑90 (MQ=255)                      aGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGAt                                          <  1:143364/90‑1 (MQ=255)                                   ggTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTg                             <  2:190155/90‑1 (MQ=255)                                     tACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGgc                           <  2:220949/90‑1 (MQ=255)                                                       cGGTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGt         <  1:134090/90‑1 (MQ=255)                                                         gTGCCATGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTgg       >  2:264110/1‑90 (MQ=255)                                                              aTGACGGAGGATGATGCCCGCCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAg  >  1:32479/1‑90 (MQ=255)                                                                                  |                                                                      CGGGACCATTACCGTGTATGAAGATTCTCAACCCGGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAG  >  NZ_CP009273/1423521‑1423671

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑