Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006881	2,185,984	2 bp→AC	coding (1116‑1117/1287 nt)	U712_10955 ←	3‑phosphoshikimate 1‑carboxyvinyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	2,185,984	0	G	A	100.0%	180.5 / NA	59	L373L (CTG→TTG)	U712_10955	3‑phosphoshikimate 1‑carboxyvinyltransferase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (33/26);  total (33/26)
*	CP006881	2,185,985	0	T	C	100.0%	192.9 / NA	59	T372T (ACA→ACG)	U712_10955	3‑phosphoshikimate 1‑carboxyvinyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (33/26);  total (33/26)

GTTGGATAAGAAACGTGAATGGCATCTGTCTGCTCAATTTCAATTGGCTCTTCAGTTATACACGAAGCGATACCAAGCATCATTCCGATTCGATGATCTCCATGGCTGGACACTGTTGCGCCGCCTCTCAGTGTTTGCTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATCTCAGCACCTAGCTTACGAAGCTCAGAAACCACGGTGTCAATGCGGTTTGTTTCTTTTACTTTAAGCTCTGCCGCGTCCTTAAT  >  CP006881/2185854‑2186113                                                                                                                                   ||                                                                                                                                 gTTGGATAAGAAACGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTttgtt                                                                                                                           <  1:14393/139‑3 (MQ=255) gTTGGATAAGAAACGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTttgtt                                                                                                                           >  3:201102/1‑137 (MQ=255) gTTGGATAAGAAACGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTttgtt                                                                                                                           <  4:82397/139‑3 (MQ=255)      aTAAGAAACGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCa                                                                                                                      <  2:316471/139‑1 (MQ=255)         atataCGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCTCCTTTCAACGTTTGTTTGACATa                                                                                                                    <  3:343508/134‑1 (MQ=255)         aGAAACGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATa                                                                                                                    <  7:49515/138‑1 (MQ=255)         aGAAACGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATa                                                                                                                    <  5:128842/138‑1 (MQ=255)         aGAAACGTGAATCGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATa                                                                                                                    <  4:429507/138‑1 (MQ=255)          gAAACGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTGTCAACGTTTGTTTGCCATaaa                                                                                                                  >  4:94415/1‑139 (MQ=255)             aCGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCt                                                                                                               <  4:287422/139‑1 (MQ=255)             aCGTGAATGGCATCCGTGTGCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCt                                                                                                               <  4:281509/139‑1 (MQ=255)                             tgtgCTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGt                                                                                               <  6:349229/137‑1 (MQ=255)                                 cTCGATTTCAATCGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGt                                                                                           >  5:314198/1‑139 (MQ=255)                                         caatcGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAAttt                                                                                    >  4:34871/1‑136 (MQ=255)                                         caatcGGCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAAttt                                                                                    >  7:319080/1‑136 (MQ=255)                                              ggCTCCTCCGTTATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCAc                                                                              <  2:153181/139‑1 (MQ=255)                                              ggCTCCTCCGTTATAACGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCAc                                                                              <  8:392068/139‑1 (MQ=255)                                                        ttATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCAccc                                                                            <  1:370813/131‑2 (MQ=255)                                                        ttATACAGGAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCAccc                                                                            >  2:370813/1‑130 (MQ=255)                                                                gAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTc                                                                                                             <  2:330341/90‑1 (MQ=255)                                                                gAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTc                                                                                                             >  1:330341/1‑90 (MQ=255)                                                                gAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCt                                                               >  6:332528/1‑136 (MQ=255)                                                                gAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCt                                                               >  6:319526/1‑136 (MQ=255)                                                                gAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCt                                                               >  5:1098/1‑136 (MQ=255)                                                                gAAGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGAAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTACATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGca                                                               >  7:239103/1‑135 (MQ=255)                                                                  aGCAATAGCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTACATCTGCTGTGGGTTCAATTTCAGCACCCAGCATTCGAAGCTCAGa                                                           >  4:69624/1‑138 (MQ=255)                                                                  aGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGa                                                           >  6:185780/1‑138 (MQ=255)                                                                  aGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGa                                                           >  4:131460/1‑138 (MQ=255)                                                                  aGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGa                                                           >  3:116379/1‑138 (MQ=255)                                                                  aGCAATACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGa                                                           >  1:314712/1‑138 (MQ=255)                                                                     aaTACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAc                                                        >  4:407960/2‑138 (MQ=255)                                                                     aaTACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAc                                                        >  7:55746/2‑138 (MQ=255)                                                                     aaTACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAc                                                        >  8:217664/2‑138 (MQ=255)                                                                      aTACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAcaa                                                      <  5:185780/139‑3 (MQ=255)                                                                      aTACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAcaa                                                      <  7:217664/139‑3 (MQ=255)                                                                       tACCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAcaa                                                      >  8:397866/1‑136 (MQ=255)                                                                        aCCAAGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAcaa                                                      >  8:233294/1‑135 (MQ=255)                                                                            aGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAcaa                                                      >  1:12034/1‑131 (MQ=255)                                                                            aGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAAcaa                                                      <  2:12034/133‑3 (MQ=255)                                                                            aGCATCATTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAgtat                                                >  2:257344/1‑137 (MQ=255)                                                                              catcatTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTttgt                                                                                                                            >  4:139824/1‑60 (MQ=255)                                                                              catcatTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTttgt                                                                                                                            <  3:139824/61‑2 (MQ=255)                                                                                 catTCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAAta                                           >  8:67996/1‑138 (MQ=255)                                                                                   ttCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAAt                                            >  7:32396/1‑136 (MQ=255)                                                                                   ttCCGATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAAt                                            <  8:32396/136‑1 (MQ=255)                                                                                   ttCCGATACGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTATGTTTGCCATAAACCTTCATTCCATCTGCAGTCGGTTCAATTTAAGCACCCAGCAAGAGAAGCTCATAAACAACAGAATCAAtaac                                         >  8:195839/1‑136 (MQ=255)                                                                                       gATTCGATGATCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGgttt                                     <  7:233294/139‑1 (MQ=255)                                                                                              tgatCTCCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCtt                              <  5:332528/139‑1 (MQ=255)                                                                                                 tctcCGTGGCTGGACACTGCAGCGCCGCCGTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCTATTTAAGCCCCCCGCTTGCGAAGCTCAGAAACCACAGTATCAAAACGGTTTGTTTCtttca                           >  2:196123/1‑137 (MQ=255)                                                                                                  ctcCGTGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCTTTCAc                          >  2:13220/1‑139 (MQ=255)                                                                                                     cgtGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCATCACCCAGCTTGCGAATCTCAGAAACAACAGTAACAAGAAGGGTTGTTTATTTCAAttt                       >  8:279771/3‑139 (MQ=255)                                                                                                     cgtGGCTGGACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCtttc                            <  5:319526/132‑2 (MQ=255)                                                                                                             gACACTGCAGCGCCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCTTTCACTTTTAGCTCTg               >  8:57636/1‑139 (MQ=255)                                                                                                               cacTGCAGCGCCGCCGTTCAACGTTTGCTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCTTTCACTTTTAGCTCTGcc             <  1:432495/139‑1 (MQ=255)                                                                                                                  tgcagcgcCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCTTTCACTTTTAGCTCTGCcgcg          >  7:404003/5‑139 (MQ=255)                                                                                                                  tgcagcgcCGCCTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCTTTCACTTTTAGCTCTGCcgcg          >  4:144052/5‑139 (MQ=255)                                                                                                                          cgccTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCTTTCACTTTTAGCTCTGCCGCGTCCTtaat  <  7:397866/139‑1 (MQ=255)                                                                                                                          cgccTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCTTTCACTTTTAGCTCTGCCGCGTCCTtaat  <  3:34871/139‑1 (MQ=255)                                                                                                                          cgccTTTCAACGTTTGTTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATTTCAGCACCCAGCTTGCGAAGCTCAGAAACAACAGTATCAATACGGTTTGTTTCTTTCACTTTTAGCTCTGCCGCGTCCTtaat  <  1:13220/139‑1 (MQ=255)                                                                                                                                   ||                                                                                                                                 GTTGGATAAGAAACGTGAATGGCATCTGTCTGCTCAATTTCAATTGGCTCTTCAGTTATACACGAAGCGATACCAAGCATCATTCCGATTCGATGATCTCCATGGCTGGACACTGTTGCGCCGCCTCTCAGTGTTTGCTTGCCATAAACCTTCATTCCATCTGCTGTCGGTTCAATCTCAGCACCTAGCTTACGAAGCTCAGAAACCACGGTGTCAATGCGGTTTGTTTCTTTTACTTTAAGCTCTGCCGCGTCCTTAAT  >  CP006881/2185854‑2186113

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑