Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,504,391	T→C	E32G (GAA→GGA)	fryA ←	putative PTS enzyme: Hpr, enzyme I and IIA components

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,504,391	0	T	C	100.0%	177.4 / NA	50	E32G (GAA→GGA)	fryA	putative PTS enzyme: Hpr, enzyme I and IIA components
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (26/24);  total (26/24)

CGCCGCGCCTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTTCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAGATCATCTGA  >  NC_000913/2504256‑2504517                                                                                                                                        |                                                                                                                               cgccgcgccTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGc                                                                                                                             >  2:1212567/1‑139 (MQ=255)  gccgcgccTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCt                                                                                                                            >  2:1109845/1‑139 (MQ=255)   ccgcgccTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCtt                                                                                                                           <  2:1252497/139‑1 (MQ=255)       gccTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                       <  1:1109845/139‑1 (MQ=255)                 cATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCa                                                                                                             <  2:72004/139‑1 (MQ=255)                 cATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCa                                                                                                             >  2:1221416/1‑139 (MQ=255)                  aTCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCAc                                                                                                            <  2:695357/139‑1 (MQ=255)                  aTCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCAc                                                                                                            <  1:1221416/139‑1 (MQ=255)                       tGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTc                                                                                                       >  2:794253/1‑139 (MQ=255)                         ccGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCtt                                                                                                     >  1:689445/1‑139 (MQ=255)                                       gCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGcc                                                                                       >  2:160857/1‑139 (MQ=255)                                                 tCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACg                                                                                         >  1:145944/1‑127 (MQ=255)                                                 tCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACg                                                                                         <  2:145944/127‑1 (MQ=255)                                                 tCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAAT‑AAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGa                                                                                    <  2:1169101/131‑1 (MQ=255)                                                 tCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAAT‑AAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGa                                                                                    >  1:1169101/1‑131 (MQ=255)                                                           gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGtt                                                                   >  1:40347/1‑139 (MQ=255)                                                           gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGtt                                                                   >  1:733146/1‑139 (MQ=255)                                                            ggtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                       >  2:662408/1‑86 (MQ=255)                                                            ggtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                       <  1:662408/86‑1 (MQ=255)                                                             gtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAg                                                                 >  2:68130/1‑139 (MQ=255)                                                                        aaTCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACag                                                      <  2:689445/139‑1 (MQ=255)                                                                              cgcCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCAc                                                                                                                     >  1:1473030/1‑70 (MQ=255)                                                                              cgcCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCAc                                                                                                                     <  2:1473030/70‑1 (MQ=255)                                                                              cgcCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGa                                                                                    <  2:712188/103‑1 (MQ=255)                                                                              cgcCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGa                                                                                    >  1:712188/1‑103 (MQ=255)                                                                                  aGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATg                                                                            >  2:405364/1‑107 (MQ=255)                                                                                  aGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATg                                                                            <  1:405364/107‑1 (MQ=255)                                                                                    cGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCa                                                              <  2:1067479/119‑1 (MQ=255)                                                                                    cGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCa                                                              >  1:1067479/1‑119 (MQ=255)                                                                                         ttttCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTaa                                     <  2:1473812/139‑1 (MQ=255)                                                                                           ttCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                       <  2:390838/55‑1 (MQ=255)                                                                                           ttCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                       >  1:390838/1‑55 (MQ=255)                                                                                             cGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGTCGGACg                                                                                  >  2:1329303/1‑90 (MQ=255)                                                                                             cGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGTCGGACg                                                                                  <  1:1329303/90‑1 (MQ=255)                                                                                                  cTGTCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                                  <  2:1268080/85‑1 (MQ=255)                                                                                                  cTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                                  >  1:1268080/1‑85 (MQ=255)                                                                                                   tGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCt                           <  1:68130/139‑1 (MQ=255)                                                                                                        ttGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCggg                      <  1:160857/139‑1 (MQ=255)                                                                                                               cTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGt                                                                           <  1:899105/79‑1 (MQ=255)                                                                                                               cTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCa               >  1:165023/1‑139 (MQ=255)                                                                                                               cTGGCGATGGTTAATAAAAGTGATACCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGt                                                                           >  2:899105/1‑79 (MQ=255)                                                                                                                       ggTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACa                                                       <  2:142578/91‑1 (MQ=255)                                                                                                                       ggTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACa                                                       >  1:142578/1‑91 (MQ=255)                                                                                                                         ttAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCt                           <  2:550132/117‑1 (MQ=255)                                                                                                                         ttAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCt                           >  1:550132/1‑117 (MQ=255)                                                                                                                            ataaAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAGATCATCTGa  >  1:1418317/1‑139 (MQ=255)                                                                                                                                  gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGa                                                                                    >  2:1075074/1‑51 (MQ=255)                                                                                                                                  gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGa                                                                                    <  1:1075074/51‑1 (MQ=255)                                                                                                                                   tGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGtt                                                                   >  2:453362/1‑67 (MQ=255)                                                                                                                                   tGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGtt                                                                   <  1:453362/67‑1 (MQ=255)                                                                                                                                        |                                                                                                                               CGCCGCGCCTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTTCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAGATCATCTGA  >  NC_000913/2504256‑2504517

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑