Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	660,412	T→C	intergenic (‑196/+13)	lipA ← / ← ybeF	lipoyl synthase/putative LysR‑type DNA‑binding transcriptional regulator YbeF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	660,412	0	T	C	100.0%	210.6 / NA	59	intergenic (‑196/+13)	lipA/ybeF	lipoyl synthase/putative LysR‑type DNA‑binding transcriptional regulator YbeF
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (27/32);  total (27/32)

GTAATTATCAACTATTTTTGAATTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGTAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCTATTTGCTCCTCATTTAAGGACGGAAAAGGCA  >  NC_000913/660275‑660540                                                                                                                                          |                                                                                                                                 gtAATTATCAACTATTTTTGAATTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCaa                                                                                                                                >  1:96057/1‑140 (MQ=255)  tAATTATCAACTATTTTTGAATTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAAc                                                                                                                               >  2:812987/1‑140 (MQ=255)    aTTATCAACTATTTTTGAATTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTTTTGGATTGTGCCATTTTATCGTTCTCCGCTGTGATCTGGCTGcaacaa                                                                                                                             >  2:351095/1‑140 (MQ=255)     ttATCAACTATTTTTGAATTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAAt                                                                                                                            >  1:830497/1‑140 (MQ=255)          aaCTATTTTTGAATTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACttt                                                                                                                       >  2:18839/1‑140 (MQ=255)                ttttGAATTAACGACTGGCAGTCTATCATTGCAACGGACGTGAAAGCACCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCaaa                                                                                                                 <  2:238288/140‑1 (MQ=255)                 tttGAATTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCaaaa                                                                                                                <  1:543952/140‑1 (MQ=255)                      aTTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCAt                                                                                                           <  2:96057/140‑1 (MQ=255)                       ttAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCAtt                                                                                                          <  1:822910/140‑1 (MQ=255)                                ggCAGTATATCATTGCAACGGACCTTAAACCAGCCAATGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAAc                                                                                                 <  1:241418/140‑1 (MQ=255)                                ggCAGTATATCATTGAATCGGATCTGAAAGCAGCCAAAGCGGTCGCGATAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAAc                                                                                                 <  2:295103/140‑1 (MQ=255)                                ggCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAAc                                                                                                 <  1:863117/140‑1 (MQ=255)                                       tatCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTAtt                                                                                          >  2:623467/1‑140 (MQ=255)                                        atCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAAc                                                                                                 <  1:536766/132‑1 (MQ=255)                                        atCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAAc                                                                                                 >  2:536766/1‑132 (MQ=255)                                          cATTGAAACGGACCTGAAAGCATCCAAAGCGGTCGAGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACt                                                                                       <  2:324350/140‑1 (MQ=255)                                           aTTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTc                                                                                      >  1:734671/1‑140 (MQ=255)                                            ttGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACt                                                                                       >  2:204746/1‑138 (MQ=255)                                            ttGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACt                                                                                       <  1:204746/138‑1 (MQ=255)                                            ttGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAAGACTTTTTAAAAATGCAGTACGAATAACATCTATTACTcc                                                                                     >  2:378936/1‑140 (MQ=255)                                             tGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGTAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCg                                                                                    >  2:857339/1‑140 (MQ=255)                                               aaaCGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGCTTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTATTCAAAAGGCAGTACGGATAAGATCTATTACTCCGTg                                                                                  >  1:402519/1‑140 (MQ=255)                                               aaaCGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTg                                                                                  >  1:161560/1‑140 (MQ=255)                                               aaaCGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTg                                                                                  >  1:432565/1‑140 (MQ=255)                                               aaaCGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTg                                                                                  <  1:814989/140‑1 (MQ=255)                                               aaaCGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTg                                                                                  <  1:646568/140‑1 (MQ=255)                                               aaaCGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTGTTCAAAATGCAGTACGGATAATATCTATTACTCCGTg                                                                                  >  1:399489/1‑140 (MQ=255)                                                 aCGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCa                                                                                >  2:762919/1‑140 (MQ=255)                                                     aCCTGAAAGCAGCCATAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGAt                                                                            <  1:378936/140‑1 (MQ=255)                                                              cagcCAAAGCGGTCGCGGAAATCTAAAATTGTTGTCGGACTGTGCCATCTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATcgcg                                                                   <  2:271324/140‑1 (MQ=255)                                                               agcCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTAGTCCGTGGAGGATGGGATCACGc                                                                  >  1:271324/1‑140 (MQ=255)                                                               agcCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGc                                                                  >  1:111357/1‑140 (MQ=255)                                                               agcCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGc                                                                  >  1:543087/1‑140 (MQ=255)                                                                 ccAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAg                                                                >  2:72776/1‑140 (MQ=255)                                                                    aaGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCt                                                             <  1:18839/140‑1 (MQ=255)                                                                    aaGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCt                                                             >  1:552970/1‑140 (MQ=255)                                                                      gCGGTCGCTAAAATGTAAAATTTTTGTTGGATTCTTCCACTTTATCGTCCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGa                                                           <  2:399489/140‑1 (MQ=255)                                                                      gCGGTCGCGAAAATGTTGAATTTTTGTTGGATTTTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGa                                                           <  2:402519/140‑1 (MQ=255)                                                                      gCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGa                                                           <  2:552970/140‑1 (MQ=255)                                                                         gTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAAtt                                                        >  1:656512/1‑140 (MQ=255)                                                                           cgcgAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATttg                                                      <  1:509724/140‑1 (MQ=255)                                                                           cgcgAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATttg                                                      <  2:161560/140‑1 (MQ=255)                                                                           cgcgAAAATGTAAAAATGTTGTCGGATTGTGCCATTTGATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATttg                                                      <  1:342186/140‑1 (MQ=255)                                                                               aaaaTGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATttgtt                                                    >  1:760649/1‑138 (MQ=255)                                                                               aaaaTGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATttgtt                                                    <  2:760649/138‑1 (MQ=255)                                                                                aaaTGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTa                                                 <  2:830497/140‑1 (MQ=255)                                                                                aaaTGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTa                                                 <  1:72776/140‑1 (MQ=255)                                                                                aaaTGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTa                                                 <  2:656512/140‑1 (MQ=255)                                                                                    gTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTgg                                             <  1:623467/140‑1 (MQ=255)                                                                                           tgttgttgGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAgaga                                      <  1:97613/140‑1 (MQ=255)                                                                                             ttgttgGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGaaa                                    <  2:703009/140‑1 (MQ=255)                                                                                                ttgGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCt                                 <  1:857339/140‑1 (MQ=255)                                                                                                        tgCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCTAtt                              <  1:854791/135‑1 (MQ=255)                                                                                                        tgCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCTAtt                              >  2:854791/1‑135 (MQ=255)                                                                                                        tgCCATTTTATCGTTCTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCTATTTGctc                         <  2:111357/140‑1 (MQ=255)                                                                                                                       cTGCGCTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGCGGATAGAAAAATCTATTTGCTTCTCATTTAAGGACgg          >  1:342101/1‑140 (MQ=255)                                                                                                                          cgcTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCTATTTGCTCCTCATTTAAgg              <  2:645931/133‑1 (MQ=255)                                                                                                                          cgcTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCTATTTGCTCCTCATTTAAGGACGGaaa       >  2:205134/1‑140 (MQ=255)                                                                                                                          cgcTGTGATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGAAGTGGATAGAGAAATCTATTTGCTCCTCATTTAAgg              >  1:645931/1‑133 (MQ=255)                                                                                                                               tgATCTGGCTGCAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCTATTTGCTCCTCATTTAAGGACGGAAAAGGCa  >  1:7057/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                 GTAATTATCAACTATTTTTGAATTAACGACTGGCAGTATATCATTGAAACGGACCTGAAAGCAGCCAAAGCGGTCGCGAAAATGTAAAATTGTTGTTGGATTGTGCCATTTTATCGTTCTGCGCTGTGATCTGGCTGTAACAATACTTTTTCAAAATGCATTACGGATAACATCTATTACTCCGTGCAGGATGGGATCACGCAGGCTGAATTTGTTGTAGTGGATAGAGAAATCTATTTGCTCCTCATTTAAGGACGGAAAAGGCA  >  NC_000913/660275‑660540

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑