Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,812,292	T→C	V289A (GTG→GCG)	emrA →	multidrug efflux pump membrane fusion protein EmrA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,812,292	0	T	C	100.0%	177.1 / NA	50	V289A (GTG→GCG)	emrA	multidrug efflux pump membrane fusion protein EmrA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (26/24);  total (26/24)

ATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGTGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCC  >  NC_000913/2812156‑2812427                                                                                                                                         |                                                                                                                                        aTGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGcggt                                                                                                                                      <  2:328261/140‑1 (MQ=255) aTGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGcggt                                                                                                                                      <  2:474529/140‑1 (MQ=255)     cGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGcggttggt                                                                                                                                  <  2:47819/140‑1 (MQ=255)        tCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTg                                                                                                                               <  1:319729/140‑1 (MQ=255)            tCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGata                                                                                                                           <  1:300193/140‑1 (MQ=255)                gCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATggg                                                                                                                       <  2:17358/140‑1 (MQ=255)                         atGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGTTCTGGATATGGGCACAGGTAg                                                                                                              <  1:329448/140‑1 (MQ=255)                             gggtggATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGata                                                                                                                           <  2:241488/123‑1 (MQ=255)                             gggtggATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGata                                                                                                                           >  1:241488/1‑123 (MQ=255)                             gggtggATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGcgcg                                                                                                          <  2:669137/140‑1 (MQ=255)                             gggtggATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGATAAAGCGGTTGGTCTGGATATGGGCACAGGTAGcgcg                                                                                                          >  1:678109/1‑140 (MQ=255)                               gtggATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGtt                                                                                                        >  2:419454/1‑140 (MQ=255)                                  gATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTtctc                                                                                                     >  1:328646/1‑140 (MQ=255)                                    tGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCAc                                                                                                   >  1:306721/1‑140 (MQ=255)                                     gCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACt                                                                                                  <  2:717127/140‑1 (MQ=255)                                             tAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAg                                                                                          <  1:701662/140‑1 (MQ=255)                                                 gagaCGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCa                                                                                      <  1:65244/140‑1 (MQ=255)                                                      gCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATg                                                                                 <  1:44758/140‑1 (MQ=255)                                                            tGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCg                                                                           >  1:113409/1‑140 (MQ=255)                                                              ccAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGt                                                                         <  1:46185/140‑1 (MQ=255)                                                              ccAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGt                                                                         >  2:153286/1‑140 (MQ=255)                                                                 atatGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAAc                                                                      <  1:419454/140‑1 (MQ=255)                                                                  tatGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACt                                                                     >  2:684096/1‑140 (MQ=255)                                                                      cGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGAt                                                                 >  2:487971/1‑140 (MQ=255)                                                                      cGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGAt                                                                 <  1:487971/140‑1 (MQ=255)                                                                        tATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACt                                                                     >  1:124351/1‑134 (MQ=255)                                                                        tATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACt                                                                     <  2:124351/134‑1 (MQ=255)                                                                             gTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTc                                                          >  1:347470/1‑140 (MQ=255)                                                                                aGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGtt                                                       <  1:684096/140‑1 (MQ=255)                                                                                aGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGtt                                                       >  1:329733/1‑140 (MQ=255)                                                                                       cACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTc                                                <  2:306721/140‑1 (MQ=255)                                                                                                 acGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCg                                      >  1:692031/1‑140 (MQ=255)                                                                                                    gATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTAt                                   >  2:527821/1‑140 (MQ=255)                                                                                                    gATATTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTAt                                   >  1:314673/1‑140 (MQ=255)                                                                                                      tatTTACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCg                                 >  1:471671/1‑140 (MQ=255)                                                                                                        tttACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGaa                               <  1:153286/140‑1 (MQ=255)                                                                                                        tttACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGaa                               >  2:306338/1‑140 (MQ=255)                                                                                                          tACGGCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACt                             <  2:328646/140‑1 (MQ=255)                                                                                                              gCGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGAc                         <  1:306338/140‑1 (MQ=255)                                                                                                               cGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGAcc                        >  1:582169/1‑140 (MQ=255)                                                                                                               cGATGATGTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGACACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGAcc                        >  1:570683/1‑140 (MQ=255)                                                                                                                 atgatgTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAg                      >  1:11852/1‑140 (MQ=255)                                                                                                                  tgatgTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGa                     <  2:582169/140‑1 (MQ=255)                                                                                                                    atgTGAAATACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGaaa                   <  2:113409/140‑1 (MQ=255)                                                                                                                          aaTACACCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTg             <  2:329733/140‑1 (MQ=255)                                                                                                                              cacCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGc         >  1:99189/1‑140 (MQ=255)                                                                                                                               acCGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCa        >  2:707650/1‑140 (MQ=255)                                                                                                                                 cgatAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAat      <  2:678109/137‑1 (MQ=255)                                                                                                                                 cGGTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAat      >  1:271636/1‑140 (MQ=255)                                                                                                                                   gTAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAatat    >  1:660147/1‑140 (MQ=255)                                                                                                                                    tAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATc   >  1:272508/1‑140 (MQ=255)                                                                                                                                    tAAAGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATc   <  2:692031/140‑1 (MQ=255)                                                                                                                                     aaaGCGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAGGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATcc  >  2:130094/1‑140 (MQ=255)                                                                                                                                         |                                                                                                                                        ATGGCGGTCGTTCCAGCCACCAATATGTGGGTGGATGCCAACTTTAAAGAGACGCAGATTGCCAATATGCGTATCGGTCAGCCGGTCACTATCACCACGGATATTTACGGCGATGATGTGAAATACACCGGTAAAGTGGTTGGTCTGGATATGGGCACAGGTAGCGCGTTCTCACTGCTTCCAGCGCAAAATGCGACCGGTAACTGGATCAAAGTCGTTCAGCGTCTGCCTGTGCGTATCGAACTGGACCAGAAACAGCTGGAGCAATATCC  >  NC_000913/2812156‑2812427

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑