Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,362,820	C→T	T5M (ACG→ATG)	yhcD →	putative fimbrial usher protein YhcD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,362,820	0	C	T	100.0%	66.5 / NA	20	T5M (ACG→ATG)	yhcD	putative fimbrial usher protein YhcD
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (8/12);  total (8/12)

GATATGGTTATCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAACGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGCCGCT  >  NC_000913/3362743‑3362890                                                                              |                                                                       gATATGGTTATCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGtt                                                                     <  2:635256/81‑1 (MQ=255)    atGGTTATCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACt                                                                  >  1:635281/1‑81 (MQ=255)          aTCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCt                                                             <  2:635257/80‑1 (MQ=255)           tCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTac                                                           <  2:635258/81‑1 (MQ=255)               ggTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCa                                                       >  1:635280/1‑81 (MQ=255)                 taataaATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCAtt                                                     <  1:635259/81‑1 (MQ=255)                   ataaataTGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTgg                                                   >  1:635296/1‑81 (MQ=255)                       atatGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAATAAAAATGTTACTGGCCTACACCATTGGtttt                                               >  2:635285/1‑81 (MQ=255)                           gTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCt                                           >  2:635287/1‑81 (MQ=255)                              aCTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCtttt                                        <  1:635260/81‑1 (MQ=255)                              aCTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCttt                                         <  1:635261/80‑1 (MQ=255)                                         aTAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGcc                             <  1:635262/81‑1 (MQ=255)                                          tAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCa                            <  1:635263/81‑1 (MQ=255)                                           aaCTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCaa                           >  2:635282/1‑81 (MQ=255)                                             cTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATg                         <  1:635264/81‑1 (MQ=255)                                                   cTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATg                   >  1:635286/1‑81 (MQ=255)                                                     ggAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATgg                  >  1:635295/1‑80 (MQ=255)                                                      gAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGt                 <  2:635265/80‑1 (MQ=255)                                                                 aTGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGcc     <  1:635266/81‑1 (MQ=255)                                                                    ttAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGCCGCt  <  1:635267/81‑1 (MQ=255)                                                                              |                                                                       GATATGGTTATCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAACGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGCCGCT  >  NC_000913/3362743‑3362890

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑