Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,065,426	T→G	T129P (ACC→CCC)	rutF ←	pyrimidine utilization flavin reductase protein F

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,065,426	0	T	G	100.0%	106.1 / NA	32	T129P (ACC→CCC)	rutF	pyrimidine utilization flavin reductase protein F
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (18/14);  total (18/14)

GTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTG  >  NZ_CP009273/1065340‑1065510                                                                                       |                                                                                     gTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGcc                                                                                   <  2:74236/90‑1 (MQ=255)   gATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGa                                                                                 <  2:280086/90‑1 (MQ=255)           cGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTcacc                                                                         >  1:1166407/1‑90 (MQ=255)            gATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTcacca                                                                        >  1:547776/1‑90 (MQ=255)              tCGAACCACCCCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCaccacc                                                                      <  2:37222/90‑1 (MQ=255)                   ccACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCt                                                                 <  1:672624/90‑1 (MQ=255)                               gTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTc                                                     >  1:649146/1‑90 (MQ=255)                                   ggtgtggtgtGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAAc                                                 <  2:649146/90‑1 (MQ=255)                                    gtgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACg                                                >  1:15948/1‑90 (MQ=255)                                    gtgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACg                                                >  2:405286/1‑90 (MQ=255)                                     tgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAAc                                                 >  1:444241/1‑88 (MQ=255)                                     tgtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAAc                                                 <  2:444241/88‑1 (MQ=255)                                      gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAg                                                       >  2:669551/1‑81 (MQ=255)                                      gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAg                                                       <  1:669551/81‑1 (MQ=255)                                      gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGaa                                              >  2:95093/1‑90 (MQ=255)                                      gtggtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGGGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGaa                                              >  2:558817/1‑90 (MQ=255)                                         gtgtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAAcc                                           >  1:845178/1‑90 (MQ=255)                                           gtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCag                                         <  2:216076/90‑1 (MQ=255)                                           gtgACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCag                                         >  1:266497/1‑90 (MQ=255)                                              aCGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTgg                                                                   <  1:826086/61‑1 (MQ=255)                                              aCGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTgg                                                                   >  2:826086/1‑61 (MQ=255)                                                   gAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCtt                                 >  2:365081/1‑90 (MQ=255)                                                        gCTTCGATGGCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGt                            <  1:116624/90‑1 (MQ=255)                                                                ggCGCAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCa                    <  2:15948/90‑1 (MQ=255)                                                                  cgcAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                  <  2:1119578/90‑1 (MQ=255)                                                                  cgcAAAACAGAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATc                  <  2:81453/90‑1 (MQ=255)                                                                           gAATGTCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCAccc         >  1:1174526/1‑90 (MQ=255)                                                                                tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTc    >  2:577060/1‑90 (MQ=255)                                                                                tCGTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGGCACCCCCGTc    >  2:934495/1‑90 (MQ=255)                                                                                  gTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCgg                       <  1:506227/69‑1 (MQ=255)                                                                                  gTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCgg                       >  2:506227/1‑69 (MQ=255)                                                                                  gTGGGGGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTg  >  1:44468/1‑90 (MQ=255)                                                                                       |                                                                                     GTGATAACTGCGATCGAACCACACCAGCCCGTAGGGTGTGGTGTGACGATGAATCGCTTCGATGGCGCAAAACAGAATGTCGTGGGTGCCGACGCTCACCACCTGGCTGATACGGCAGTCAAACGAAACCAGAGCCTCTTCCAGTTGCGGGCATCCGGTCACCCCCGTCTG  >  NZ_CP009273/1065340‑1065510

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑