Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,481,946	T→C	A77A (GCA→GCG)	emrY ←	tripartite efflux pump membrane subunit EmrY

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,481,946	0	T	C	100.0%	211.2 / NA	61	A77A (GCA→GCG)	emrY	tripartite efflux pump membrane subunit EmrY
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (27/34);  total (27/34)

GCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCGACGTTAGAAATAGT  >  NC_000913/2481813‑2482074                                                                                                                                      |                                                                                                                                 gCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAAc                                                                                                                            <  1:703869/140‑1 (MQ=255)   cccGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCt                                                                                                                          <  2:1023690/140‑1 (MQ=255)     cGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGc                                                                                                                        <  2:198271/140‑1 (MQ=255)             aCCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACa                                                                                                                <  2:1023295/140‑1 (MQ=255)                  tGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGAt                                                                                                           <  2:104046/140‑1 (MQ=255)                    aaCGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCg                                                                                                         >  2:549585/1‑140 (MQ=255)                         ctctAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATg                                                                                                    >  2:897207/1‑140 (MQ=255)                         ctctAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATg                                                                                                    >  2:106213/1‑140 (MQ=255)                         ctctAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATg                                                                                                    >  2:372098/1‑140 (MQ=255)                         ctctAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATg                                                                                                    >  2:2923/1‑140 (MQ=255)                         ctctAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATg                                                                                                    >  1:523390/1‑140 (MQ=255)                           ctAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGc                                                                                                  <  1:549585/140‑1 (MQ=255)                           ctAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGc                                                                                                  <  1:897207/140‑1 (MQ=255)                            tAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCa                                                                                                 <  1:676790/140‑1 (MQ=255)                               aaaaTATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCAttt                                                                                              >  1:690681/1‑140 (MQ=255)                                aaaTATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTg                                                                                             <  1:106213/140‑1 (MQ=255)                                   tatCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTa                                                                                          >  2:246361/1‑140 (MQ=255)                                   tatCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTa                                                                                          >  2:164440/1‑140 (MQ=255)                                      cAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTacac                                                                                       >  2:52844/1‑140 (MQ=255)                                            aTCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACg                                                                                 <  1:372098/140‑1 (MQ=255)                                             tCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGa                                                                                <  1:683900/140‑1 (MQ=255)                                             tCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGa                                                                                <  1:246361/140‑1 (MQ=255)                                                      gTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACg                                                                                 <  1:650128/130‑1 (MQ=255)                                                      gTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACg                                                                                 >  2:650128/1‑130 (MQ=255)                                                      gTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAAc                                                                       >  2:11026/1‑140 (MQ=255)                                                      gTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAAc                                                                       <  1:2923/140‑1 (MQ=255)                                                             ggCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTg                                                                <  1:280328/140‑1 (MQ=255)                                                                  cacaTTAATGAAGACAGGGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTCCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTc                                                           <  2:771510/140‑1 (MQ=255)                                                                   acaTTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCg                                                          <  1:164440/140‑1 (MQ=255)                                                                     aTTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGACATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTc                                                        >  2:104228/1‑140 (MQ=255)                                                                     aTTAATGAAGACAGCG‑AAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCt                                                       >  1:386431/1‑140 (MQ=255)                                                                       tAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAg                                                                   <  1:733115/127‑1 (MQ=255)                                                                       tAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAg                                                                   >  2:733115/1‑127 (MQ=255)                                                                        aaTGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTc                                                           <  2:639638/134‑1 (MQ=255)                                                                        aaTGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTc                                                           <  2:919406/134‑1 (MQ=255)                                                                        aaTGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTc                                                           >  1:639638/1‑134 (MQ=255)                                                                        aaTGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTc                                                           >  1:919406/1‑134 (MQ=255)                                                                        aaTGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGt                                                     >  2:1390/1‑140 (MQ=255)                                                                        aaTGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGt                                                     >  1:33490/1‑140 (MQ=255)                                                                         aTGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGtt                                                    >  2:631383/1‑140 (MQ=255)                                                                            aaGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGAt                                                 <  2:159999/140‑1 (MQ=255)                                                                              gACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGc                                               <  2:715008/140‑1 (MQ=255)                                                                               aCAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCt                                                             >  2:844346/1‑125 (MQ=255)                                                                               aCAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCt                                                             <  1:844346/125‑1 (MQ=255)                                                                               aCAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCt                                              <  1:631383/140‑1 (MQ=255)                                                                               aCAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCt                                              >  1:774139/1‑140 (MQ=255)                                                                                 aGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTcc                                            >  2:230064/1‑140 (MQ=255)                                                                                 aGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTcc                                            >  1:818816/1‑140 (MQ=255)                                                                                   cGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCa                                          >  1:45103/1‑140 (MQ=255)                                                                                   cGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCa                                          >  1:269476/1‑140 (MQ=255)                                                                                     aaaaaaaaGTGGCTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTGCACCAAACGAGGTGATAACCCAGGTGGCGTGGGCGGGTGATGCTCCCAGa                                        <  2:238920/140‑1 (MQ=255)                                                                                        aaaaaGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAg                                     <  2:45103/140‑1 (MQ=255)                                                                                            aGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAg                                 <  2:782321/140‑1 (MQ=255)                                                                                                   gAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGt                          <  1:230064/140‑1 (MQ=255)                                                                                                           aaaTAATCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTg                  <  2:818816/140‑1 (MQ=255)                                                                                                             ataatCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCg                <  1:327745/140‑1 (MQ=255)                                                                                                               aatCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCGAc              <  1:11026/140‑1 (MQ=255)                                                                                                               aatCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCGAc              <  1:746432/140‑1 (MQ=255)                                                                                                                 tCTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCGACGt            >  2:169744/1‑140 (MQ=255)                                                                                                                  cTTAATTCGCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCGACGtt           <  2:653553/140‑1 (MQ=255)                                                                                                                          gCCTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCGACGTTAGAAATAg   <  2:269476/140‑1 (MQ=255)                                                                                                                           ccTATTCTTTGCGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCGACGTTAGAAATAGt  <  2:1024277/140‑1 (MQ=255)                                                                                                                                      |                                                                                                                                 GCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCCAGAAAGCCAGATATTGTCGGTATTGCGACGTTAGAAATAGT  >  NC_000913/2481813‑2482074

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: ‑