Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,854,055	T→C	V45A (GTG→GCG)	emrD →	multidrug efflux pump EmrD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,854,055	0	T	C	100.0%	110.0 / NA	32	V45A (GTG→GCG)	emrD	multidrug efflux pump EmrD
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/16);  total (16/16)

GATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTC  >  NC_000913/3853918‑3854188                                                                                                                                          |                                                                                                                                      gATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGgcgc                                                                                                                                     <  1:542425/140‑1 (MQ=255)  aTAATGAAAAGGCAACGAAACGACAGTTTCTTATTGACGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCa                                                                                                                                    <  1:342823/140‑1 (MQ=255)      tGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGc                                                                                                                                >  2:716700/1‑140 (MQ=255)        aaaaGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGt                                                                                                                              >  2:419271/1‑140 (MQ=255)         aaaGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTa                                                                                                                             >  1:697919/1‑140 (MQ=255)         aaaGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTa                                                                                                                             <  1:607260/140‑1 (MQ=255)           aGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAAt                                                                                                                           <  1:658518/140‑1 (MQ=255)                       gTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCAGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATct                                                                                                               >  2:540246/1‑140 (MQ=255)                                  aTTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACg                                                                                                    >  1:612819/1‑140 (MQ=255)                                        gTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAAAGGGCGCTTATCTGCTGACTTACGGTGtct                                                                                              >  2:9114/1‑140 (MQ=255)                                          tGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTca                                                                                            <  2:591662/140‑1 (MQ=255)                                          tGGTATTACTCGTGGCCGTCGGTCACATGCCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCACTTATCTGCTGACTTACGGTGTCTca                                                                                            <  1:296387/140‑1 (MQ=255)                                             tATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAg                                                                                         <  2:75479/140‑1 (MQ=255)                                                   tCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGttt                                                                                   >  1:532862/1‑140 (MQ=255)                                                      tGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTAt                                                                                >  1:548595/1‑140 (MQ=255)                                                          cGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGcc                                                                            <  2:532862/140‑1 (MQ=255)                                                             cGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGAGCGCTTATCTGCCGACCTACGGTGTCTCACGGCTGTTTTATGGCCCGa                                                                         >  2:234851/1‑140 (MQ=255)                                                                             aCCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTggg                                                         <  1:183962/140‑1 (MQ=255)                                                                              ccATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgc                                                        >  1:54915/1‑140 (MQ=255)                                                                                aTTTATATTCCAGCTTTTGCCGGTAGGGCGCGCGATCGCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccg                                                      <  1:234851/140‑1 (MQ=255)                                                                                  ttATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccgcc                                                    >  1:74884/1‑140 (MQ=255)                                                                                  ttATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccgcc                                                    <  1:419271/140‑1 (MQ=255)                                                                                   tataTTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGccgccg                                                   <  2:612819/140‑1 (MQ=255)                                                                                   tataTTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGccgccg                                                   <  1:716700/140‑1 (MQ=255)                                                                                       ttCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTGTTATGGCGCGAGTTTCGACCGAGTGGGCCGCCGACCg                                               >  1:227715/1‑140 (MQ=255)                                                                                         ccAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccgcc                                                    >  2:544920/1‑133 (MQ=255)                                                                                         ccAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccgcc                                                    <  1:544920/133‑1 (MQ=255)                                                                                                          ggCGCGCGATCTCAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGt                            <  2:697919/140‑1 (MQ=255)                                                                                                                   tctcAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTa                   >  2:713819/1‑140 (MQ=255)                                                                                                                     tcAACGTCCGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATg                 <  2:522684/140‑1 (MQ=255)                                                                                                                             cGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGTTGATCCTTGTCGGATTGTCCATTTTTATGCTGGCAAc         >  1:297234/1‑140 (MQ=255)                                                                                                                             cGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAAc         >  2:666174/1‑140 (MQ=255)                                                                                                                             cGTGAAGGGGCGGCGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAAc         >  1:42120/1‑140 (MQ=255)                                                                                                                                    gggCGGCGCAGAGCGTACTGGGCGCTTATCTTCTGACTTTCGGTGTCTTACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTc  <  2:227715/140‑1 (MQ=255)                                                                                                                                          |                                                                                                                                      GATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTC  >  NC_000913/3853918‑3854188

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑