Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,204,239	G→A	pseudogene (70/234 nt) A24T (GCA→ACA)	oweE → ymfN →	phage replication protein e14 prophage; chimeric replication protein/phage terminase YmfN

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,204,239	0	G	A	100.0%	207.8 / NA	59	pseudogene (70/234 nt) A24T (GCA→ACA)	oweE ymfN	phage replication protein e14 prophage; chimeric replication protein/phage terminase YmfN
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (31/28);  total (31/28)

GAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCAGAAGGCT  >  NC_000913/1204112‑1204374                                                                                                                                |                                                                                                                                        gAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGccc                                                                                                                             >  2:77631/1‑140 (MQ=255)  aaTGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCg                                                                                                                            <  2:34132/140‑1 (MQ=255)    tGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGcc                                                                                                                          <  2:18286/140‑1 (MQ=255)            cccGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGAt                                                                                                                  <  2:961060/140‑1 (MQ=255)            cccGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGAt                                                                                                                  >  1:426363/1‑140 (MQ=255)                cTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCa                                                                                                              >  1:685384/1‑140 (MQ=255)                  cGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGt                                                                                                            <  2:845025/140‑1 (MQ=255)                  cGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGt                                                                                                            <  2:670504/140‑1 (MQ=255)                         tttCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACg                                                                                                     <  1:1019283/140‑1 (MQ=255)                         tttCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACg                                                                                                     <  2:685384/140‑1 (MQ=255)                                   aaTTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGtgtgtg                                                                                           >  2:462647/1‑140 (MQ=255)                                   aaTTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGtgtgtg                                                                                           <  2:426363/140‑1 (MQ=255)                                         gggAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGT‑ATGACGAAGGTGTGTGCTGGCCa                                                                                    <  1:991538/140‑1 (MQ=255)                                              aTAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCaa                                                                                >  2:370013/1‑140 (MQ=255)                                               tAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAAt                                                                               >  2:273693/1‑140 (MQ=255)                                                  agGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGa                                                                            <  1:896651/140‑1 (MQ=255)                                                      cggtcATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAAcc                                                                        >  2:335234/1‑140 (MQ=255)                                                       ggtcATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCa                                                                       <  1:419512/140‑1 (MQ=255)                                                        gtcATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCAt                                                                      >  1:265347/1‑140 (MQ=255)                                                        gtcATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCAt                                                                      >  1:262826/1‑140 (MQ=255)                                                          cATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTg                                                                    <  1:21812/140‑1 (MQ=255)                                                          cATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTg                                                                    <  1:462647/140‑1 (MQ=255)                                                          cATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTg                                                                    <  1:370013/140‑1 (MQ=255)                                                              aGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCAtt                                                                     >  1:785444/1‑135 (MQ=255)                                                              aGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCAtt                                                                     <  2:785444/135‑1 (MQ=255)                                                              aGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCg                                                                >  2:283024/1‑140 (MQ=255)                                                                   tAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGa                                                           >  2:218575/1‑140 (MQ=255)                                                                   tAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGa                                                           >  2:243962/1‑140 (MQ=255)                                                                    aaaTTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGAt                                                          <  2:262826/140‑1 (MQ=255)                                                                    aaaTTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGAt                                                          <  2:265347/140‑1 (MQ=255)                                                                     aaTTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAAc                                                                         >  1:577213/1‑124 (MQ=255)                                                                     aaTTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAAc                                                                         <  2:577213/124‑1 (MQ=255)                                                                         aaCCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGgcg                                                     <  1:243962/140‑1 (MQ=255)                                                                          aCCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGgcgc                                                    >  2:327369/1‑140 (MQ=255)                                                                           ccagCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGcgcg                                                   <  2:844317/137‑1 (MQ=255)                                                                           ccGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGcgcg                                                   <  1:327369/140‑1 (MQ=255)                                                                               cTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCggggg                                               >  2:656837/1‑139 (MQ=255)                                                                               cTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGa                                               >  2:1004575/1‑140 (MQ=255)                                                                                 atgtatgGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATg                                             >  1:533157/1‑140 (MQ=255)                                                                                          aTGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTc                                    <  1:283024/140‑1 (MQ=255)                                                                                            ggTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAg                                  >  1:70782/1‑140 (MQ=255)                                                                                            ggTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAg                                  >  1:667439/1‑140 (MQ=255)                                                                                             gTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGa                                 >  2:288847/1‑140 (MQ=255)                                                                                              ttGCGCTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGaa                                >  1:958131/1‑140 (MQ=255)                                                                                                  gcTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGc                            <  2:958131/140‑1 (MQ=255)                                                                                                   cTGCATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCt                           >  2:397446/1‑140 (MQ=255)                                                                                                   cTGCATAAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCt                           >  2:698843/1‑140 (MQ=255)                                                                                                      cATCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATc                        >  1:284277/1‑140 (MQ=255)                                                                                                       aTCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAGTGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAAc                               >  2:481629/1‑132 (MQ=255)                                                                                                       aTCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAGTGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAAc                               <  1:481629/132‑1 (MQ=255)                                                                                                       aTCAGGCATGAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCg                       <  1:527387/140‑1 (MQ=255)                                                                                                                gAAGTTATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTgg              >  2:206888/1‑140 (MQ=255)                                                                                                                     tATCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCa         <  2:667439/140‑1 (MQ=255)                                                                                                                      aTCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCAg        >  2:273833/1‑140 (MQ=255)                                                                                                                       tCCAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCAGa       >  2:395490/1‑140 (MQ=255)                                                                                                                         cAGCGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCAGAAg     <  2:70782/140‑1 (MQ=255)                                                                                                                            cGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCAGAAGGCt  >  1:355024/1‑140 (MQ=255)                                                                                                                            cGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCAGAAGGCt  >  2:81052/1‑140 (MQ=255)                                                                                                                            cGTGACAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCAGAAGGCt  <  1:656837/140‑1 (MQ=255)                                                                                                                                |                                                                                                                                        GAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGTGCTGGCCATCAATTGAAACCATTGCCCGTCAGATTGGCGCGGGGATGAGTACCGTCAGAACGGCTATCGCACGGCTGGAAGCAGAAGGCT  >  NC_000913/1204112‑1204374

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: ‑