Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	554,427	A→G	intergenic (+217/‑3)	fimA → / → fimC	type 1 fimbrial major subunit FimA/type 1 fimbria chaperone FimC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	554,427	0	A	G	100.0%	29.7 / NA	10	intergenic (+217/‑3)	fimA/fimC	type 1 fimbrial major subunit FimA/type 1 fimbria chaperone FimC
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (6/4);  total (6/4)

ATGATGTGTTGTAAGAAACCAAAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAGGG  >  NZ_CP009273/554348‑554507                                                                                |                                                                                 atgatgTGTTGTAAGAAACCAAAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTATGATGAc                                                                        <  2:29439/90‑1 (MQ=255)             aaGAAACCAAAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTATGATGACTAAAATAAAGtt                                                            >  1:402203/1‑90 (MQ=255)             aaGAAACCAAAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTATGATGACTAAAATAAAGtt                                                            >  2:214303/1‑90 (MQ=255)                     aaaGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGc                                                    <  1:337987/90‑1 (MQ=255)                                           ccTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCAt                              >  1:153443/1‑90 (MQ=255)                                             ttATTTTTGCCGTCAGGAATACACAAGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCAttt                            >  2:209951/1‑90 (MQ=255)                                                         tCAGGAATACACAAGGCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCGGCGccc                >  1:378809/1‑90 (MQ=255)                                                                       ggCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCAtgc            >  1:220168/1‑80 (MQ=255)                                                                       ggCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCAtgc            <  2:220168/80‑1 (MQ=255)                                                                       ggCGTATTAGCTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAggg  <  2:416086/90‑1 (MQ=255)                                                                                |                                                                                 ATGATGTGTTGTAAGAAACCAAAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAGGG  >  NZ_CP009273/554348‑554507

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑