Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,117,194	T→C	Q640R (CAG→CGG)	yghJ ←	putative lipoprotein YghJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,117,194	0	T	C	100.0%	206.2 / NA	57	Q640R (CAG→CGG)	yghJ	putative lipoprotein YghJ
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (30/27);  total (30/27)

TATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCTGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAGTTCTTCATGTCATCCGG  >  NC_000913/3117065‑3117324                                                                                                                                  |                                                                                                                                   tatTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACg                                                                                                                          >  2:308226/1‑140 (MQ=255)  atTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGt                                                                                                                         <  1:308226/140‑1 (MQ=255)    tCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGttt                                                                                                                       <  2:825373/140‑1 (MQ=255)    tCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGttt                                                                                                                       >  1:825373/1‑140 (MQ=255)         gCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAAt                                                                                                                  <  1:1005154/140‑1 (MQ=255)         gCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAAt                                                                                                                  <  2:584056/140‑1 (MQ=255)          ccGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATa                                                                                                                 >  2:959020/1‑140 (MQ=255)            gTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGa                                                                                                               <  2:749462/140‑1 (MQ=255)            gTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGa                                                                                                               <  1:512974/140‑1 (MQ=255)             ttAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATg                                                                                                                             <  1:114380/125‑1 (MQ=255)             ttAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATg                                                                                                                             >  2:114380/1‑125 (MQ=255)             ttAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGAc                                                                                                              >  1:344456/1‑140 (MQ=255)             ttAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGAc                                                                                                              >  2:393846/1‑140 (MQ=255)              tAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAATCCGACCATGACGTTTAAAATAGACa                                                                                                             <  2:555050/140‑1 (MQ=255)              tAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGAc                                                                                                                           >  2:559489/1‑126 (MQ=255)              tAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGAc                                                                                                                           <  1:559489/126‑1 (MQ=255)              tAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACa                                                                                                             <  1:393846/140‑1 (MQ=255)              tAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACa                                                                                                             <  2:561008/140‑1 (MQ=255)                    tCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATcc                                                                                                       <  1:27445/140‑1 (MQ=255)                     cagcagCGGCATTTCCTGCGGATCGAGATCGCAATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGa                                                                                                               <  1:513178/131‑1 (MQ=255)                     cagcagCGGCATTTCCTGCGGATCGAGATCGCAATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGa                                                                                                               >  2:513178/1‑131 (MQ=255)                      agcagcGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAg                                                                                                     >  1:529118/1‑140 (MQ=255)                      agcagcGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAg                                                                                                     >  2:516047/1‑140 (MQ=255)                       gcagcGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAAt                                                                                                                  >  1:120952/1‑126 (MQ=255)                       gcagcGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAAt                                                                                                                  <  2:120952/126‑1 (MQ=255)                          gcGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTg                                                                                                 >  2:334525/1‑140 (MQ=255)                          gcGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTg                                                                                                 <  1:93715/140‑1 (MQ=255)                            ggCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGt                                                                                               >  1:921229/1‑140 (MQ=255)                                 ttCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTa                                                                                          <  1:334525/140‑1 (MQ=255)                                    cTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACgg                                                                                       <  1:959020/140‑1 (MQ=255)                                                      aTAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGt                                                                     <  2:529118/140‑1 (MQ=255)                                                             cTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCtt                                                              >  1:79747/1‑140 (MQ=255)                                                                     cTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTAt                                                      >  2:137131/1‑140 (MQ=255)                                                                       cAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTAtcg                                                    >  2:564571/1‑140 (MQ=255)                                                                        aaCAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACTGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTAtcgt                                                   <  2:921229/140‑1 (MQ=255)                                                                          cAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTAtcgtcg                                                 >  1:158586/1‑140 (MQ=255)                                                                               aTGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAg                                            >  2:125840/1‑140 (MQ=255)                                                                               aTGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAg                                            >  2:720766/1‑140 (MQ=255)                                                                               aTGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAg                                            >  2:679883/1‑140 (MQ=255)                                                                               aTGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAg                                            >  2:844710/1‑140 (MQ=255)                                                                                tGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGa                                           >  1:572772/1‑140 (MQ=255)                                                                                  cccGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATa                                         >  2:130762/1‑140 (MQ=255)                                                                                  cccGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATa                                         >  1:408937/1‑140 (MQ=255)                                                                                  cccGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATa                                         >  2:350911/1‑140 (MQ=255)                                                                                    cGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAgc                                       >  2:804540/1‑140 (MQ=255)                                                                                      cAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAgcgc                                     <  2:344456/140‑1 (MQ=255)                                                                                              ggATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGtt                             <  2:265813/140‑1 (MQ=255)                                                                                                   gAAGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCa                        <  1:516047/140‑1 (MQ=255)                                                                                                     aGTCGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATg                      <  1:137131/140‑1 (MQ=255)                                                                                                        cGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAg                   <  2:79747/140‑1 (MQ=255)                                                                                                        cGAACGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAg                   <  1:720766/140‑1 (MQ=255)                                                                                                         gAACGCAGCGCTGTTTCCCGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAGt                  >  1:228107/1‑140 (MQ=255)                                                                                                          aaCGCAGCGCTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAGtt                 >  1:206261/1‑140 (MQ=255)                                                                                                                 cgcTGTTTCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAGTTCTTCATg          >  2:367156/1‑140 (MQ=255)                                                                                                                        tCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAGTTCTTCATGTCATCCg   <  1:367156/140‑1 (MQ=255)                                                                                                                        tCCTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAGTTCTTCATGTCATCCg   <  2:206261/140‑1 (MQ=255)                                                                                                                         ccTGTAACCCGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAGTTCTTCATGTCATCCgg  >  1:384686/1‑140 (MQ=255)                                                                                                                                  |                                                                                                                                   TATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACCTGACCATGACGTTTAAAATAGACAGTATCCAGGTTGGTGCCTACGGTCATGCTGGCTTTCGCGTCCGGCTTCCATTTATCGTCGGACAGATAGCGCAGCACGTTCTCCATGAAGTTCTTCATGTCATCCGG  >  NC_000913/3117065‑3117324

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑