Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	884,588	A→G	T306A (ACG→GCG)	mdfA →	multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	884,588	0	A	G	100.0%	179.7 / NA	51	T306A (ACG→GCG)	mdfA	multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (21/30);  total (21/30)

AAGTGCCTATTTTCGGGGCGTTAATTGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAACGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGATATGAGTAAAGGTA  >  NC_000913/884454‑884714                                                                                                                                       |                                                                                                                               aaGTGCCTATTTTCGGGGCGTTAATTGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGtt                                                                                                                           <  2:1126645/140‑1 (MQ=255)  aGTGCCTATTTTCGGGGCGTTAATTGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTa                                                                                                                          >  1:46421/1‑140 (MQ=255)     gCCTATTTTCGGGGCGTTAATTGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTAtct                                                                                                                       <  1:235665/140‑1 (MQ=255)            ttCGGGGCGTTAATTGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCa                                                                                                                <  2:46421/140‑1 (MQ=255)              cGGGGCGTTAATTGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCAcg                                                                                                              <  2:962781/140‑1 (MQ=255)              cGGGGCGTTAATTGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCAcg                                                                                                              <  2:102974/140‑1 (MQ=255)                          tGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTACGGa                                                                                                  <  2:820702/140‑1 (MQ=255)                           gCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGAt                                                                                                 <  1:901300/140‑1 (MQ=255)                             gggTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTAt                                                                                                         <  2:634409/130‑1 (MQ=255)                             gggTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTAt                                                                                                         >  1:634409/1‑130 (MQ=255)                              ggTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGAc                                                                                              >  2:792135/1‑140 (MQ=255)                                 aaCTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGc                                                                                           <  2:1140986/140‑1 (MQ=255)                                      gCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGt                                                                                      >  1:268358/1‑140 (MQ=255)                                        tGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGtt                                                                                     >  2:839766/1‑139 (MQ=255)                                        tGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGtt                                                                                     <  1:839766/139‑1 (MQ=255)                                              cgcgTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTAtt                                                                              <  1:792135/140‑1 (MQ=255)                                                cgTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTa                                                                            <  2:268358/140‑1 (MQ=255)                                                 gTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTAt                                                                           <  1:169001/140‑1 (MQ=255)                                                  tCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATg                                                                          >  1:156294/1‑140 (MQ=255)                                                                     gTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGc                                                       <  1:427910/140‑1 (MQ=255)                                                                     gTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGc                                                       <  1:604111/140‑1 (MQ=255)                                                                        cGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGaa                                                    <  1:132439/140‑1 (MQ=255)                                                                          ttCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATg                                                  <  1:837533/140‑1 (MQ=255)                                                                          ttCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATg                                                  <  1:980782/140‑1 (MQ=255)                                                                           tCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGc                                                 >  1:1073592/1‑140 (MQ=255)                                                                             gCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCgg                                               <  2:91737/140‑1 (MQ=255)                                                                             gCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCgg                                               >  1:291581/1‑140 (MQ=255)                                                                               tGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGa                                             <  1:411854/140‑1 (MQ=255)                                                                                   tattatGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTgg                                         >  1:35684/1‑140 (MQ=255)                                                                                    attatGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCAGTATTGGTCTGGCGAATGCGGGACTGGt                                        <  2:442668/140‑1 (MQ=255)                                                                                           gcggcTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGa                                             >  1:1067579/1‑128 (MQ=255)                                                                                           gcggcTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGa                                             <  2:1067579/128‑1 (MQ=255)                                                                                           gcggcTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTa                                 >  1:794313/1‑140 (MQ=255)                                                                                           gcggcTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTa                                 >  1:1003173/1‑140 (MQ=255)                                                                                           gcggcTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTa                                 >  1:393065/1‑140 (MQ=255)                                                                                                  gCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGt                          >  2:878031/1‑140 (MQ=255)                                                                                                  gCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGt                          >  2:585343/1‑140 (MQ=255)                                                                                                       ttATGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGcc                     <  2:1073592/140‑1 (MQ=255)                                                                                                          tGATTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGc                  <  1:919026/140‑1 (MQ=255)                                                                                                            aTTGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGa                >  2:571585/1‑140 (MQ=255)                                                                                                             ttGGTCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGat               <  2:35684/140‑1 (MQ=255)                                                                                                                 tCTATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGATATGa           >  1:1074302/1‑140 (MQ=255)                                                                                                                   tATTGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGATATGAGt         <  1:571585/140‑1 (MQ=255)                                                                                                                     ttGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGat               >  2:213599/1‑132 (MQ=255)                                                                                                                     ttGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGat               >  1:1084276/1‑132 (MQ=255)                                                                                                                     ttGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGat               <  2:1084276/132‑1 (MQ=255)                                                                                                                     ttGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGat               <  1:213599/132‑1 (MQ=255)                                                                                                                     ttGGTCGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGATATGAGTaa       <  2:1003173/140‑1 (MQ=255)                                                                                                                          cGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGat               <  1:797745/127‑1 (MQ=255)                                                                                                                          cGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGat               >  2:797745/1‑127 (MQ=255)                                                                                                                          cGCTGCTGCGGCAGCGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGATATGAGTAAAGGTa  >  2:721884/1‑140 (MQ=255)                                                                                                                                       |                                                                                                                               AAGTGCCTATTTTCGGGGCGTTAATTGCGGGTAACTTGCTGTTAGCGCGTCTGACCTCGCGCCGCACCGTACGTTCGCTGATTATTATGGGCGGCTGGCCGATTATGATTGGTCTATTGGTCGCTGCTGCGGCAACGGTTATCTCATCGCACGCGTATTTATGGATGACTGCCGGGTTAAGTATTTATGCTTTCGGTATTGGTCTGGCGAATGCGGGACTGGTGCGATTAACCCTGTTTGCCAGCGATATGAGTAAAGGTA  >  NC_000913/884454‑884714

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑