Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,471,866	A→G	pseudogene (197/519 nt)	yfdL ←	CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,471,866	0	A	G	100.0%	216.0 / NA	57	pseudogene (197/519 nt)	yfdL	CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (32/25);  total (32/25)

TGTCCTGAGACGTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTACATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAAGCAGCTGGTCAT  >  NC_000913/2471732‑2471998                                                                                                                                       |                                                                                                                                     tgtCCTGAGACGTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCAttt                                                                                                                                 <  1:711271/140‑1 (MQ=255)   tCCTGAGACGTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCAt                                                                                                                                   <  2:489891/136‑1 (MQ=255)   tCCTGAGACGTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCAt                                                                                                                                   >  1:489891/1‑136 (MQ=255)   tCCTGAGACGTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCt                                                                                                                               >  2:8424/1‑140 (MQ=255)    ccTGAGACGTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCtt                                                                                                                              >  2:965426/1‑140 (MQ=255)         gaCGTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGc                                                                                                                         >  2:51302/1‑140 (MQ=255)            gTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGc                                                                                                                      <  2:963856/140‑1 (MQ=255)             tCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCt                                                                                                                     <  2:517548/140‑1 (MQ=255)             tCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCt                                                                                                                     >  1:987366/1‑140 (MQ=255)             tCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCt                                                                                                                     >  1:542168/1‑140 (MQ=255)             tCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCt                                                                                                                     >  2:44874/1‑140 (MQ=255)             tCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCt                                                                                                                     >  2:282915/1‑140 (MQ=255)                        tCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAAcc                                                                                                          >  1:348833/1‑140 (MQ=255)                         cAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCa                                                                                                         >  1:174084/1‑140 (MQ=255)                                   ccATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCga                                                                                               <  2:542168/140‑1 (MQ=255)                                     aTTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCgaga                                                                                             <  1:282915/140‑1 (MQ=255)                                              ttAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGc                                                                                    >  2:248252/1‑140 (MQ=255)                                               tAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCa                                                                                   <  2:372818/140‑1 (MQ=255)                                                   ccGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGt                                                                               >  1:919820/1‑140 (MQ=255)                                                     ggATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGc                                                                             >  2:956299/1‑140 (MQ=255)                                                      gATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGcc                                                                            >  1:496115/1‑140 (MQ=255)                                                       aTGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCg                                                                           <  1:248252/140‑1 (MQ=255)                                                         ggCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTc                                                                         <  1:871264/140‑1 (MQ=255)                                                         ggCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTc                                                                         <  1:206436/140‑1 (MQ=255)                                                           cAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCa                                                                       <  1:580799/140‑1 (MQ=255)                                                                 ttGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGa                                                                 <  2:919820/140‑1 (MQ=255)                                                                     tatCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATc                                                             >  2:235870/1‑140 (MQ=255)                                                                        ccAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGcc                                                          <  1:51302/140‑1 (MQ=255)                                                                          aGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCaa                                                        <  1:487886/140‑1 (MQ=255)                                                                                  aaGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTc                                                >  1:55216/1‑140 (MQ=255)                                                                                  aaGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGCTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTc                                                >  2:980481/1‑140 (MQ=255)                                                                                   aGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCt                                               <  2:174084/140‑1 (MQ=255)                                                                                   aGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCt                                               <  1:44874/140‑1 (MQ=255)                                                                                      aGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGc                                            <  2:348833/140‑1 (MQ=255)                                                                                       gAAAGCATAAAACTTCCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCg                                           >  2:1070059/1‑140 (MQ=255)                                                                                        aaaGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCgg                                          <  1:913735/140‑1 (MQ=255)                                                                                                    tACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGc                                            >  2:28475/1‑126 (MQ=255)                                                                                                    tACCCATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGc                                            <  1:28475/126‑1 (MQ=255)                                                                                                      cccATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAgcgc                            >  2:1137955/1‑140 (MQ=255)                                                                                                      cccATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAgcgc                            >  1:65751/1‑140 (MQ=255)                                                                                                      cccATATCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAgcgc                            >  2:968435/1‑140 (MQ=255)                                                                                                           atCAGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGaa                       <  1:8424/140‑1 (MQ=255)                                                                                                              aGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAgcg                    <  1:980481/140‑1 (MQ=255)                                                                                                              aGGTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAgcg                    <  1:319046/140‑1 (MQ=255)                                                                                                                gTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGcgcg                  >  2:973647/1‑140 (MQ=255)                                                                                                                gTATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGcgcg                  <  2:987366/140‑1 (MQ=255)                                                                                                                 tATCTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCgg                 <  2:496115/140‑1 (MQ=255)                                                                                                                    cTGATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTaa              >  2:804268/1‑140 (MQ=255)                                                                                                                      gATTCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCTAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAagc            >  1:183795/1‑140 (MQ=255)                                                                                                                        ttCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAagcag          >  1:768627/1‑140 (MQ=255)                                                                                                                        ttCGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAagcag          >  1:1125162/1‑140 (MQ=255)                                                                                                                          cGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAgcg                    <  2:134105/128‑1 (MQ=255)                                                                                                                          cGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAgcg                    >  1:134105/1‑128 (MQ=255)                                                                                                                          cGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAAGCAGCt        >  2:902426/1‑140 (MQ=255)                                                                                                                          cGCCCCTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAAGCAGCt        >  1:310155/1‑140 (MQ=255)                                                                                                                               cTGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAAGCAGCTGGTCa   >  2:336706/1‑140 (MQ=255)                                                                                                                                tGTCCCTGCATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAAGCAGCTGGTCAt  >  1:30950/1‑140 (MQ=255)                                                                                                                                       |                                                                                                                                     TGTCCTGAGACGTCAGCGGAACATCAATTGGCCCCCATTGAATAATTAAACCGGATGGCAATTTTTGATATCCAGGAACTGAAGCAGAAAGCATAAAACTACCCATATCAGGTATCTGATTCGCCCCTGTCCCTACATTTCTTTTAGCCGCTTCTCCCAAACCAAGGTTTTCGAGAGCCTTTTGCACCGTGCCGTCCAATTTGATATCGCCAAACGGATTCTTGCGGCTTAACAGCAGCGCACGAAGCGCGGTAAGCAGCTGGTCAT  >  NC_000913/2471732‑2471998

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: ‑