Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,988,044	A→G	Y170C (TAT→TGT)	yqeH →	putative LuxR family transcriptional regulator YqeH

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,988,044	0	A	G	100.0%	228.1 / NA	63	Y170C (TAT→TGT)	yqeH	putative LuxR family transcriptional regulator YqeH
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (41/22);  total (41/22)

TGATGATGGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATATCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACATTGATACTCAACGAC  >  NC_000913/2987907‑2988179                                                                                                                                          |                                                                                                                                        tgatgatgGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTc                                                                                                                                       >  2:146034/1‑140 (MQ=255) tgatgatgGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTc                                                                                                                                       >  1:474041/1‑140 (MQ=255) tgatgatgGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTc                                                                                                                                       >  1:584416/1‑140 (MQ=255) tgatgatgGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTAT‑ATCCATGTCa                                                                                                                                      >  2:384186/1‑140 (MQ=255) tgatgatgGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACAATAATGGTGTAGATAGTTTCTGGTTATAATCCATGTc                                                                                                                                       >  1:195940/1‑140 (MQ=255) tgatgatgGTCTTGATGTTGCCAAAGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACTATAATGGGGTAAATAGTTTCTCGTTATAATCCATGTc                                                                                                                                       >  1:321232/1‑140 (MQ=255)   atgatgGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAg                                                                                                                                     >  1:473629/1‑140 (MQ=255)    tgatgGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCGTAAAGGGTTATATGGTGTCTGGTTATAATCCATGTCAGa                                                                                                                                    >  2:179812/1‑140 (MQ=255)     gatgGTCTTGATGTTTCCAATGCAACGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGAt                                                                                                                                   <  1:180438/140‑1 (MQ=255)      atgGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGAtt                                                                                                                                  >  2:562243/1‑140 (MQ=255)        ggTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGc                                                                                                                                >  1:591205/1‑140 (MQ=255)         gTCTTGATGTTGCCATTGAAAAGATCAGAAAACTATTAATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCt                                                                                                                               <  1:261916/140‑1 (MQ=255)          tCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTg                                                                                                                              <  2:474041/140‑1 (MQ=255)          tCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTg                                                                                                                              >  1:122802/1‑140 (MQ=255)            ttGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACGATAATGGGGTATATGGGTTCTGGTTGTAATACATGTCAGATTGCTGaa                                                                                                                            >  2:180438/1‑140 (MQ=255)               aTGTTGCCAATGAAAAGATCAGCCAACTATTTATTGGTCCTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGtt                                                                                                                         <  2:247152/140‑1 (MQ=255)               aTGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGtt                                                                                                                         <  2:400349/140‑1 (MQ=255)                    gCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCtgga                                                                                                                    <  2:642004/140‑1 (MQ=255)                          gAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCtggatatgga                                                                                                              <  2:567994/140‑1 (MQ=255)                            aaaGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCtggatatggata                                                                                                            <  1:562243/140‑1 (MQ=255)                                        aCTATTTATTGGTCGTTATTTATCACTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCt                                                                                                <  1:179812/140‑1 (MQ=255)                                           atttattGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGCAGTTCTGGATATGGATATCCGTAGCATCTAcg                                                                                             <  2:458279/140‑1 (MQ=255)                                            tttattGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCtggatatgga                                                                                                              <  1:94493/122‑1 (MQ=255)                                            tttattGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCtggatatgga                                                                                                              >  2:94493/1‑122 (MQ=255)                                                    tCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGc                                                                                    >  2:444365/1‑140 (MQ=255)                                                    tCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGc                                                                                    >  2:592734/1‑140 (MQ=255)                                                      gTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCaa                                                                                  >  1:387414/1‑140 (MQ=255)                                                       ttatttatCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAAc                                                                                 >  2:97808/1‑140 (MQ=255)                                                             atCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCg                                                                           >  1:361195/1‑140 (MQ=255)                                                                  ttACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAag                                                                      >  1:502460/1‑140 (MQ=255)                                                                  ttACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAag                                                                      >  2:475576/1‑140 (MQ=255)                                                                    aCCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAagag                                                                    >  2:436283/1‑140 (MQ=255)                                                                    aCCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAagag                                                                    >  1:113967/1‑140 (MQ=255)                                                                     ccGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAgaga                                                                   <  2:122802/140‑1 (MQ=255)                                                                        gAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATg                                                                <  1:161445/140‑1 (MQ=255)                                                                                     aaCTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTAAAAGCAACGAATGGAAAAGAGAATGGGTGGTAAAATaa                                                   >  1:259329/1‑140 (MQ=255)                                                                                        tCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACg                                                <  2:533026/140‑1 (MQ=255)                                                                                            aTGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGGGTACAAGCGACGAACCGAAAAGAGAGTGGGTGGTAAAATGAACGAatt                                            >  2:301902/1‑140 (MQ=255)                                                                                            aTGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAatt                                            >  2:16679/1‑140 (MQ=255)                                                                                               gAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAattatt                                         <  1:592734/140‑1 (MQ=255)                                                                                               gAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAattatt                                         <  2:564270/140‑1 (MQ=255)                                                                                                aaTTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAAttattt                                        >  1:81127/1‑140 (MQ=255)                                                                                                     aCCATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCg                                   >  2:585835/1‑140 (MQ=255)                                                                                                      ccATAATGGGGTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGt                                  >  2:106635/1‑140 (MQ=255)                                                                                                             ggggTATATGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACAtt                           <  2:591205/140‑1 (MQ=255)                                                                                                                 tataTGGTTTCTGGTTATAATCCATGTCAGGTTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGt                       >  1:10890/1‑140 (MQ=255)                                                                                                                 tataTGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGt                       >  2:544662/1‑140 (MQ=255)                                                                                                                   tatGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTcc                     >  2:572074/1‑140 (MQ=255)                                                                                                                   tatGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGCAAAATAATCGAATTCTTTATTGGTTCACATTCGGTcc                     >  1:207407/1‑140 (MQ=255)                                                                                                                   tatGGTTTCTGGTTATAATCCACGTCAGATTCCTGCAGTACTGGATATCGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTcc                     <  2:195940/140‑1 (MQ=255)                                                                                                                     tGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCaa                   <  1:146034/140‑1 (MQ=255)                                                                                                                     tGGTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCaa                   <  1:154072/140‑1 (MQ=255)                                                                                                                      ggTTTCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAAc                  >  1:133332/1‑140 (MQ=255)                                                                                                                        tttCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACAt                >  1:351887/1‑140 (MQ=255)                                                                                                                        tttCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACAt                >  1:448646/1‑140 (MQ=255)                                                                                                                        tttCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTGCACATTCGGTCCAACAt                >  2:432565/1‑140 (MQ=255)                                                                                                                          tCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACATTg              >  1:383707/1‑140 (MQ=255)                                                                                                                          tCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACATTg              >  2:597648/1‑140 (MQ=255)                                                                                                                          tCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACATTg              >  2:22989/1‑140 (MQ=255)                                                                                                                          tCTGGTTATAATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACATTg              >  1:477754/1‑140 (MQ=255)                                                                                                                                 ataATCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAGTTAATAATACGTTCACATTCGCACCAACATAGATACTCa       >  2:323243/1‑140 (MQ=255)                                                                                                                                     tCCATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACATTGATACTCAACGa   <  1:444365/140‑1 (MQ=255)                                                                                                                                      ccATGTCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACATTGATACTCAACGAc  <  2:361195/140‑1 (MQ=255)                                                                                                                                          |                                                                                                                                        TGATGATGGTCTTGATGTTGCCAATGAAAAGATCAGACAACTATTTATTGGTCGTTATTTATCATTTACCGGAGGTAACACATTAACTCAGATGGAATTCACCATAATGGGGTATATGGTTTCTGGTTATAATCCATATCAGATTGCTGAAGTTCTGGATATGGATATCCGTAGCATCTACGCGTACAAGCAACGAATCGAAAAGAGAATGGGTGGTAAAATAAACGAATTATTTATTCGTTCACATTCGGTCCAACATTGATACTCAACGAC  >  NC_000913/2987907‑2988179

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: ‑