Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	566,528	A→G	intergenic (‑167/‑156)	exoD ← / → renD	DLP12 prophage; putative exonuclease ExoD/DLP12 prophage; protein RenD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	566,528	0	A	G	100.0%	210.7 / NA	60	intergenic (‑167/‑156)	exoD/renD	DLP12 prophage; putative exonuclease ExoD/DLP12 prophage; protein RenD
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (30/30);  total (30/30)

AAGCGTGGCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAACTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTAAAGCTAAG  >  NC_000913/566391‑566660                                                                                                                                          |                                                                                                                                     aaGCGTGGCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCt                                                                                                                                    >  2:27541/1‑140 (MQ=255)  aGCGTGGCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTg                                                                                                                                   <  1:582032/140‑1 (MQ=255)  aGCGTGGCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTg                                                                                                                                   <  1:27541/140‑1 (MQ=255)    cGTGGCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGAc                                                                                                                                 <  1:460341/140‑1 (MQ=255)    cGTGGCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGAc                                                                                                                                 <  1:979838/140‑1 (MQ=255)      tGGCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCt                                                                                                                                    >  1:440961/1‑135 (MQ=255)       ggCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTg                                                                                                                              >  2:284640/1‑140 (MQ=255)                   gATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTg                                                                                                                                   <  1:759430/123‑1 (MQ=255)                   gATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTg                                                                                                                                   >  2:759430/1‑123 (MQ=255)                   gATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGcgcg                                                                                                                  >  2:378319/1‑140 (MQ=255)                       cAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAAtt                                                                                                              >  1:153880/1‑140 (MQ=255)                         gagTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTaa                                                                                                            >  1:102697/1‑140 (MQ=255)                          agTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAAc                                                                                                           >  1:54837/1‑140 (MQ=255)                           gTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAAcc                                                                                                          >  1:1079607/1‑140 (MQ=255)                             cTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCgt                                                                                                        <  1:778164/140‑1 (MQ=255)                               tATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAAt                                                                                                               <  2:284148/131‑1 (MQ=255)                               tATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAAt                                                                                                               >  1:284148/1‑131 (MQ=255)                                aTCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCgtggt                                                                                                     <  2:939537/140‑1 (MQ=255)                                    gTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTgaga                                                                                                 >  1:567737/1‑140 (MQ=255)                                      ggAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCgtggt                                                                                                     <  2:1122463/134‑1 (MQ=255)                                      ggAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCgtggt                                                                                                     >  1:1122463/1‑134 (MQ=255)                                      ggAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACg                                                                                               <  1:284640/140‑1 (MQ=255)                                      ggAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACg                                                                                               <  1:119215/140‑1 (MQ=255)                                      ggAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACg                                                                                               >  2:643645/1‑140 (MQ=255)                                      ggAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCAGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCgtggt                                                                                                     <  1:632706/134‑1 (MQ=255)                                      ggAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCAGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCgtggt                                                                                                     >  2:632706/1‑134 (MQ=255)                                                cgcgCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAAc                                                                                     >  1:376967/1‑140 (MQ=255)                                                          tggttggtTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAaaca                                                                           <  1:537057/140‑1 (MQ=255)                                                           ggttggttACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAaacaa                                                                          <  1:743228/140‑1 (MQ=255)                                                           ggttggttACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAaacaa                                                                          >  2:291646/1‑140 (MQ=255)                                                               ggttACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTc                                                                      <  2:46469/140‑1 (MQ=255)                                                                 ttACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCt                                                                    >  2:289671/1‑140 (MQ=255)                                                                  tACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTg                                                                   <  2:567737/140‑1 (MQ=255)                                                                   aCCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGt                                                                  >  1:1123515/1‑140 (MQ=255)                                                                   aCCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGt                                                                  >  1:698838/1‑140 (MQ=255)                                                                           gTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCg                                                          >  1:325280/1‑140 (MQ=255)                                                                              ccAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTa                                                       <  2:955276/140‑1 (MQ=255)                                                                              ccAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTa                                                       <  2:1123515/140‑1 (MQ=255)                                                                              ccAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTa                                                       <  2:102697/140‑1 (MQ=255)                                                                              ccAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTa                                                       <  1:291646/140‑1 (MQ=255)                                                                                  aaCATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGAcc                                                   >  2:195914/1‑140 (MQ=255)                                                                                   aCATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACct                                                  <  1:195914/140‑1 (MQ=255)                                                                                      tGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTa                                                       >  1:83607/1‑132 (MQ=255)                                                                                      tGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTa                                                       <  2:83607/132‑1 (MQ=255)                                                                                           gCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCg                                          <  2:376967/140‑1 (MQ=255)                                                                                            ccAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTa                                                       <  1:556641/126‑1 (MQ=255)                                                                                            ccAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTa                                                       >  2:556641/1‑126 (MQ=255)                                                                                                           aCGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGct                                >  2:445596/1‑134 (MQ=255)                                                                                                           aCGCGGAATTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGct                                <  1:445596/134‑1 (MQ=255)                                                                                                                 aaTTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGc                           <  1:696334/133‑1 (MQ=255)                                                                                                                 aaTTACGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGc                           >  2:696334/1‑133 (MQ=255)                                                                                                                     aCGGCGCAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAg                <  1:289671/140‑1 (MQ=255)                                                                                                                           cAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTa          <  1:178875/140‑1 (MQ=255)                                                                                                                           cAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTa          >  2:880932/1‑140 (MQ=255)                                                                                                                           cAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTa          >  2:1072752/1‑140 (MQ=255)                                                                                                                           cAAGGCTGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTa          <  2:238548/140‑1 (MQ=255)                                                                                                                                 tGCCGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTAAAGCTa    <  2:363103/140‑1 (MQ=255)                                                                                                                                   ccGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTAAAGCTAAg  >  1:457717/1‑140 (MQ=255)                                                                                                                                   ccGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTAAAGCTAAg  >  2:857946/1‑140 (MQ=255)                                                                                                                                   ccGATGAGCTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTAAAGCTAAg  >  1:9866/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                     AAGCGTGGCCTGTATCCGGATGCAGAGTCTTATCCGTGGAAATCGAACGCGCATTACTGGTTGGTTACCAACTTGTACCAGAACATGCGGGCCAATGCGCTGGCTGACGCGGAATTACGGCGCAAGGCTGCCGATGAACTGACCTGTATGACAGCGCGAATTAACCGTGGTGAGACGATACCTGAACCAGTAAAACAACTTCCTGTTATGGGCGGTAGACCTCTAAATCGTGCACAGGCTCTGGCGAAGATCGCAGAAATTAAAGCTAAG  >  NC_000913/566391‑566660

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: ‑