Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,884,900	C→A	P29T (CCG→ACG)	yidD →	membrane protein insertion efficiency factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,884,900	0	C	A	100.0%	200.7 / NA	56	P29T (CCG→ACG)	yidD	membrane protein insertion efficiency factor
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (30/26);  total (30/26)

AAGGGGTTGCCGACCTCGATAACCGTGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGCCGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACACCCTGGTGGTGACGA  >  NC_000913/3884764‑3885033                                                                                                                                         |                                                                                                                                      aaGGGGTTGCCGACCTCGATAACCGTGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGc                                                                                                                                    >  2:623845/1‑140 (MQ=255)   ggggTTGCCGCCCTCGATAACCGTGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCAt                                                                                                                                  <  2:382717/140‑1 (MQ=255)   ggggTTGCCGACCTCGATAACCGTGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCAt                                                                                                                                  <  2:1352449/140‑1 (MQ=255)                   aTAACCGTGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCaa                                                                                                                  <  2:1436304/140‑1 (MQ=255)                    tAACCGTGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAAc                                                                                                                 <  1:1378967/140‑1 (MQ=255)                          tGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTc                                                                                                           >  1:931390/1‑140 (MQ=255)                          tGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTc                                                                                                           >  2:691580/1‑140 (MQ=255)                          tGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTc                                                                                                           >  2:404201/1‑140 (MQ=255)                           gCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGtt                                                                                                                           >  1:980597/1‑123 (MQ=255)                           gCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGtt                                                                                                                           <  2:980597/123‑1 (MQ=255)                            ctctctCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCaa                                                                                                         >  2:387562/1‑140 (MQ=255)                                ctcGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTa                                                                                                     <  2:98033/140‑1 (MQ=255)                                ctcGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTa                                                                                                     <  1:404201/140‑1 (MQ=255)                                 ggggAAGTGTTGGAAAAATTATGGCGCCGCCCCTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTAc                                                                                                    <  2:473225/138‑1 (MQ=255)                                     aaGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTAc                                                                                                    >  1:579741/1‑136 (MQ=255)                                     aaGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTAc                                                                                                    <  2:579741/136‑1 (MQ=255)                                         gTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGa                                                                                            >  1:1345638/1‑140 (MQ=255)                                                  aTTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTgcg                                                                                   <  2:377953/140‑1 (MQ=255)                                                  aTTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTgcg                                                                                   <  1:520311/140‑1 (MQ=255)                                                  aTTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTgcg                                                                                   <  1:623845/140‑1 (MQ=255)                                                  aTTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTgcg                                                                                   <  1:322602/140‑1 (MQ=255)                                                  aTTATGGCGCCGCCACTGTCACCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTgcg                                                                                   <  2:1030335/140‑1 (MQ=255)                                                    tATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCa                                                                                        <  2:760579/133‑1 (MQ=255)                                                    tATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCa                                                                                        >  1:760579/1‑133 (MQ=255)                                                     aTGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAg                                                                                >  2:1045043/1‑140 (MQ=255)                                                           ccgccACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTgg                                                                          <  1:1246148/140‑1 (MQ=255)                                                            cgccACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGa                                                                         <  2:1345638/140‑1 (MQ=255)                                                             gccACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAg                                                                        >  1:111733/1‑140 (MQ=255)                                                             gccACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAg                                                                        <  1:868519/140‑1 (MQ=255)                                                                      gCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAg                                                               >  2:1339321/1‑140 (MQ=255)                                                                        cTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGc                                                             <  1:387562/140‑1 (MQ=255)                                                                         tGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCATTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAg                                                                        <  1:1241819/128‑1 (MQ=255)                                                                         tGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCATTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAg                                                                        >  2:1241819/1‑128 (MQ=255)                                                                         tGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCa                                                            >  1:1325740/1‑140 (MQ=255)                                                                            cTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAgtt                                                         >  1:1435551/1‑140 (MQ=255)                                                                            cTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAgtt                                                         >  2:498526/1‑140 (MQ=255)                                                                                 gggTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAgttggttg                                                    <  2:1325740/140‑1 (MQ=255)                                                                                      cTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGt                                               >  1:374104/1‑140 (MQ=255)                                                                                             cccTCATTCGGGACTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAAcgc                                        >  2:1031362/1‑140 (MQ=255)                                                                                               cTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGt                                      >  2:937902/1‑140 (MQ=255)                                                                                                     cGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTaaa                                >  1:1400446/1‑140 (MQ=255)                                                                                                        gTCTATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATg                             >  2:808898/1‑140 (MQ=255)                                                                                                           tATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCa                          >  1:411142/1‑140 (MQ=255)                                                                                                           tATCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCa                          <  2:510404/140‑1 (MQ=255)                                                                                                            aTCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCAc                         >  1:736407/1‑140 (MQ=255)                                                                                                            aTCAACGCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCAc                         >  1:253080/1‑140 (MQ=255)                                                                                                                  gCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTa                   <  1:691580/140‑1 (MQ=255)                                                                                                                  gCCTGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTa                   >  2:1286929/1‑140 (MQ=255)                                                                                                                     tGATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTacac                >  1:1277738/1‑140 (MQ=255)                                                                                                                      gATTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAGCCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACAcc               <  1:1031362/140‑1 (MQ=255)                                                                                                                       aTTAGTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACAccc              >  1:822981/1‑140 (MQ=255)                                                                                                                           gTCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACACCCtggt          <  2:253080/140‑1 (MQ=255)                                                                                                                            tCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGcc                           <  2:956806/122‑1 (MQ=255)                                                                                                                            tCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGcc                           >  1:956806/1‑122 (MQ=255)                                                                                                                            tCCGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACACCCtggtg         >  2:1451217/1‑140 (MQ=255)                                                                                                                              cGCTACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACACCCTggtggt       >  2:1064485/1‑140 (MQ=255)                                                                                                                                 tACTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACACCCTGGTGGTGAc    >  1:343703/1‑140 (MQ=255)                                                                                                                                   cTCGGGACGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACACCCTGGTGGTGACGa  >  2:144628/1‑140 (MQ=255)                                                                                                                                         |                                                                                                                                      AAGGGGTTGCCGACCTCGATAACCGTGCTCTCTCGGAAGCGTTGGAAAAATTATGGCGCCGCCACTGTCGCCTGGCTCGCGGGTCCTGATAGCCCTCATTCGGGTCTATCAACGCCTGATTAGTCCGCTACTCGGGCCGCATTGTCGTTTCACTCCAACCTGTTCAAGCTACGGAATTGAGGCATTGCGCAGGTTTGGAGTGATAAAAGGCAGTTGGTTGACGGTGAAACGCGTATTAAAATGCCACCCTTTACACCCTGGTGGTGACGA  >  NC_000913/3884764‑3885033

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑