Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,769,444	G→A	A260A (GCG→GCA)	yfjQ →	CP4‑57 prophage; protein YfjQ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,769,444	0	G	A	100.0%	209.8 / NA	60	A260A (GCG→GCA)	yfjQ	CP4‑57 prophage; protein YfjQ
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (29/31);  total (29/31)

ATGACCTTTGGACCACCTATCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACC  >  NC_000913/2769308‑2769580                                                                                                                                         |                                                                                                                                         aTGACCTTTGGACCACCTATCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACtg                                                                                                                                       >  2:72751/1‑140 (MQ=255) aTGACCTTTGGACCACCTATCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACtg                                                                                                                                       >  1:469151/1‑140 (MQ=255)       tttGGACCACCTATCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTg                                                                                                                                 <  1:72751/140‑1 (MQ=255)               accTATCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGCACTCATACTCGTGCCGTGCGTGGCATTGACGGGGGTGTGAAGCTTAACCGTGCACTGTGGGGGATCGCAGa                                                                                                                         >  2:506636/1‑140 (MQ=255)                ccTATCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGaa                                                                                                                        >  2:570812/1‑140 (MQ=255)                ccTATCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGaa                                                                                                                        >  1:555570/1‑140 (MQ=255)                   aTCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAaca                                                                                                                     >  1:737796/1‑140 (MQ=255)                   aTCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAaca                                                                                                                     >  1:635722/1‑140 (MQ=255)                        cGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCt                                                                                                                <  2:21433/140‑1 (MQ=255)                        cGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCt                                                                                                                <  2:635722/140‑1 (MQ=255)                          gATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCa                                                                                                              >  1:191412/1‑140 (MQ=255)                          gATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCa                                                                                                              <  2:723368/140‑1 (MQ=255)                          gATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCa                                                                                                              >  2:820717/1‑140 (MQ=255)                           aTTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCAc                                                                                                             >  1:891632/1‑140 (MQ=255)                            ttCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACg                                                                                                            <  2:469151/140‑1 (MQ=255)                              cAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCa                                                                                                          >  2:972353/1‑140 (MQ=255)                               aaGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCaa                                                                                                         <  1:570812/140‑1 (MQ=255)                               aaGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCaa                                                                                                         <  2:959809/140‑1 (MQ=255)                                aGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAAc                                                                                                        <  1:506636/140‑1 (MQ=255)                                       cTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTa                                                                                                 <  2:567761/140‑1 (MQ=255)                                        tGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAg                                                                                                <  2:555570/140‑1 (MQ=255)                                          aTTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGAc                                                                                              >  1:262990/1‑140 (MQ=255)                                                 gCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCAt                                                                                       >  1:200022/1‑140 (MQ=255)                                                  cGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATg                                                                                      <  2:324420/140‑1 (MQ=255)                                                    gACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGtt                                                                                    >  1:659667/1‑140 (MQ=255)                                                    gACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGtt                                                                                    >  1:484377/1‑140 (MQ=255)                                                    gACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGtt                                                                                    >  1:336692/1‑140 (MQ=255)                                                        cAGTGGGGGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCa                                                                                >  2:352351/1‑140 (MQ=255)                                                         aGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGcc                                                                                 >  2:599768/1‑138 (MQ=255)                                                         aGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGcc                                                                                 <  1:599768/138‑1 (MQ=255)                                                         aGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCAc                                                                               <  2:737796/140‑1 (MQ=255)                                                         aGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCAc                                                                               >  2:842056/1‑140 (MQ=255)                                                         aGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCAc                                                                               <  2:336692/140‑1 (MQ=255)                                                            ggggGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACgtt                                                                            <  1:352351/140‑1 (MQ=255)                                                               cGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGcc                                                                                 >  1:140859/1‑132 (MQ=255)                                                               cGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGcc                                                                                 <  2:140859/132‑1 (MQ=255)                                                                gTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTa                                                                        <  2:86769/140‑1 (MQ=255)                                                                   aTGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAata                                                                     >  2:490257/1‑140 (MQ=255)                                                                    tGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAatat                                                                    <  2:262990/140‑1 (MQ=255)                                                                     gCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATc                                                                   >  2:30714/1‑140 (MQ=255)                                                                        aaaGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGa                                                                <  2:314274/140‑1 (MQ=255)                                                                               gACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACaccacc                                                         >  2:646760/1‑140 (MQ=255)                                                                               gACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACaccacc                                                         >  2:964729/1‑140 (MQ=255)                                                                               gACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACaccacc                                                         <  2:191412/140‑1 (MQ=255)                                                                                aCGAACTCATACTCGTGCCGTGCATGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCt                                                        >  2:357879/1‑140 (MQ=255)                                                                                   aaCTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGCGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTc                                                     <  2:891632/140‑1 (MQ=255)                                                                                    aCTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTcc                                                    <  2:659667/140‑1 (MQ=255)                                                                                      tCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGc                                                  <  2:41705/140‑1 (MQ=255)                                                                                        aTACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCAt                                                <  2:200022/140‑1 (MQ=255)                                                                                          aCTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTcc                                                    <  2:452956/134‑1 (MQ=255)                                                                                          aCTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTcc                                                    >  1:452956/1‑134 (MQ=255)                                                                                                 ccgtgcGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTAtgtg                                       <  1:646760/140‑1 (MQ=255)                                                                                                    tgcgtgGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTc                                    >  1:21486/1‑140 (MQ=255)                                                                                                      cgtgGCATTGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCgt                                  >  2:538462/1‑140 (MQ=255)                                                                                                              tGACGGGGATGTGAAGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCa                          <  1:357879/140‑1 (MQ=255)                                                                                                                           aaGCTTAACCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTtat             <  1:964729/140‑1 (MQ=255)                                                                                                                                 aaCCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCttt       >  2:223875/1‑140 (MQ=255)                                                                                                                                  aCCGTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCtttt      >  1:126021/1‑140 (MQ=255)                                                                                                                                     gTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAAc   <  2:484377/140‑1 (MQ=255)                                                                                                                                     gTGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAAc   <  2:386980/140‑1 (MQ=255)                                                                                                                                      tGCACTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAAcc  <  1:842056/140‑1 (MQ=255)                                                                                                                                         |                                                                                                                                         ATGACCTTTGGACCACCTATCAGCGGATTCAAGAAAACCTGATTAAGGGCGGACTCAGTGGGCGTAATGCTAAAGGCGGACGAACTCATACTCGTGCCGTGCGTGGCATTGACGGGGATGTGAAGCTTAACCGTGCGCTGTGGGTGATGGCAGAAACACTGCTCACGCAACTGCAGTAGACGTTTCATGTTGCCACGTTGTTAATATCGGACACCACCTGTCCGCATCGCTATGTGCTCGTGTGCCTCAATCCCCCGGTTATAGCTTTTAACC  >  NC_000913/2769308‑2769580

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: ‑