Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,499,544	Δ1 bp	coding (874/1698 nt)	ypdA →	sensory histidine kinase YpdA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,499,542	0	C	.	100.0%	108.6 / NA	26	coding (872/1698 nt)	ypdA	sensory histidine kinase YpdA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (14/12);  total (14/12)

GGCGATGACTTCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAGCCCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGGAGAAAGGGGTCGTGACCGGAACGC  >  NC_000913/2499466‑2499613                                                                             |                                                                        ggCGATGACTTCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAGccacc                                                                     >  2:395234/1‑78 (MQ=255)  gCGATGACTTCATTAGCCCAACTACCCGTCGGGCGATGAATTACGGAAGAATCATCATTAAAAACAATGATGAAGccacc                                                                     <  2:395199/80‑4 (MQ=255)   cGATGACTTCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGc                                                                  <  2:395200/81‑1 (MQ=255)     aTGACTTCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGcac                                                                <  2:395201/81‑1 (MQ=255)      tGACTTCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGcaca                                                               <  2:395202/81‑1 (MQ=255)       gACTTCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCacac                                                              >  2:395260/1‑81 (MQ=255)         cTTCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCa                                                            <  2:395203/81‑1 (MQ=255)           tCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCa                                                            >  2:395248/1‑79 (MQ=255)            cATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAGCAATGATGAAG‑CCACCGCACACCag                                                           <  2:395204/79‑1 (MQ=255)            cATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCag                                                           <  2:395205/79‑1 (MQ=255)                        tACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATg                                             >  1:395249/1‑81 (MQ=255)                        tACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATg                                             >  2:395242/1‑81 (MQ=255)                             gTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGt                                        <  2:395206/81‑1 (MQ=255)                              tCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTg                                       <  2:395207/81‑1 (MQ=255)                                aGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGAt                                     <  2:395208/81‑1 (MQ=255)                                   cGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATcc                                   >  1:395238/1‑80 (MQ=255)                                     aTGAATTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGAACACCAGAGATTCATTCCATGCTGGTGATCCCAt                                <  1:395209/81‑1 (MQ=255)                                        aaTTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATtgt                             >  2:395244/1‑81 (MQ=255)                                        aaTTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATtgt                             >  1:395245/1‑81 (MQ=255)                                         aTTACGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATtgtg                            >  1:395239/1‑81 (MQ=255)                                            aCGGAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTgg                           >  1:395241/1‑79 (MQ=255)                                              ggAAAAATCATCATTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGgag                        >  1:395255/1‑80 (MQ=255)                                                      catcatTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGGAGAAAGGGGTc               >  1:395230/1‑81 (MQ=255)                                                       atcatTAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGGAGAAAGGGGTc               <  2:395210/80‑1 (MQ=255)                                                           ttAAAAACAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGGAGAAAGGGGTCGTGAc          <  1:395211/81‑1 (MQ=255)                                                             aaaaaCAATGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGGAGAAAGGGGTCGTGACCg        >  1:395247/1‑81 (MQ=255)                                                                   aaTGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGGAGAAAGGGGTCGTGACCGGAACGc  >  1:395254/1‑81 (MQ=255)                                                                   aaTGATGAAG‑CCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGGAGAAAGGGGTCGTGACCGGAACGc  >  2:395256/1‑81 (MQ=255)                                                                             |                                                                        GGCGATGACTTCATTAGCCCGACTACCCGTCAGGCGATGAATTACGGAAAAATCATCATTAAAAACAATGATGAAGCCCACCGCACACCAGAGATTCATTCCATGCTGGTGATCCCATTGTGGGAGAAAGGGGTCGTGACCGGAACGC  >  NC_000913/2499466‑2499613

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑