Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_014034	3,173,548	+C	100%	intergenic (+583/‑99)	tyrA → / → RCAP_rcc02983	prephenate dehydrogenase/extensin family protein

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_014034	3,173,548	1	.→C	100.0%	250.9	67	intergenic (+583/‑99)	tyrA/RCAP_rcc02983	prephenate dehydrogenase/extensin family protein
Reads supporting (aligned to +/- strand):  new base (47/20):  ref base (0/0):  total (47/20)

CGGTCGCCTCGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGG.CCGCCGCGCAAGCG.CAA.GCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGGGTCGGTCTG  >  NC_014034/3173452‑3173642                                                                                                  |                                                                                                 cGGTCCCCTCGGCCCCGCCGGCCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGg.cccg                                                                                              <  1:162277/101‑3 (MQ=255)  ggTCGCCTCGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCgggccgc                                                                                              >  2:1871140/1‑96 (MQ=255)  ggTCGCCTCGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGg.cccgc                                                                                             <  1:324993/101‑4 (MQ=255)        cTCGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgca                                                                                        >  1:3585848/1‑101 (MQ=255)        cTCGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgca                                                                                        >  1:3994636/1‑101 (MQ=255)        cTCGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgca                                                                                        <  1:2456547/101‑1 (MQ=255)         tCGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgcaa                                                                                       <  2:167400/101‑1 (MQ=255)          cGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgcaag                                                                                      >  2:2456363/1‑101 (MQ=255)           ggCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGACGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgcaagg                                                                                     >  1:3275904/1‑100 (MQ=255)              cgcgCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgcaagcg.ca                                                                                 <  2:3994376/101‑1 (MQ=255)              cgcgCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgcaagcg.ca                                                                                 <  1:3686026/101‑1 (MQ=255)                  ccGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgcaagcg.caacgc                                                                             <  2:1984855/101‑4 (MQ=255)                  ccGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgcaagcg.caacgc                                                                             >  1:1984981/1‑98 (MQ=255)                    ggTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCgcgcaagcg.caacgccc                                                                           >  2:3794390/1‑96 (MQ=255)                      tcccgcccgccCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGccccc                                                                         <  1:3381758/98‑1 (MQ=255)                      tCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGccccc                                                                         >  2:3151043/1‑101 (MQ=255)                      ccACGCCCGCCCCCGCCCCCACCCCTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGccccc                                                                         <  1:3151282/100‑1 (MQ=255)                        ccccccgcccccgccCCCACCCCTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCccccgc                                                                       <  1:1871260/98‑1 (MQ=255)                         cccccgcccccgccCCCACCCCTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCccccgcc                                                                      <  1:2901187/99‑1 (MQ=255)                          ccccgcccccgccCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCccccaccc                                                                     <  2:3585595/100‑1 (MQ=255)                              gcccccgcccccACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCGCCAC.GCCCCCGCCCCGGa                                                                 >  1:3143270/1‑101 (MQ=255)                                 cccgcccccACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAgc                                                              >  1:2025182/1‑101 (MQ=255)                                  ccgcccccACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAgcg                                                             <  1:1547333/101‑1 (MQ=255)                                   cgcccccACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAgcgc                                                            >  1:1806320/1‑101 (MQ=255)                                     cccccACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAgcgccc                                                          >  2:2933236/1‑101 (MQ=255)                                         caccacTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACCCCCCCGCCCCGGAAgcgcccgcgc                                                      >  1:2749450/1‑101 (MQ=255)                                          cccacTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAgcgcccgcgcc                                                     <  2:44584/100‑1 (MQ=255)                                            cacTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGcgcccgcgcccg                                                   <  2:1466471/101‑1 (MQ=255)                                             acTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGa                                                  >  2:954385/1‑101 (MQ=255)                                                 ccGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACCCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGcc                                              >  1:1725493/1‑101 (MQ=255)                                                  cGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGccc                                             <  2:1725374/101‑1 (MQ=255)                                                  cGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGccc                                             >  2:1580238/1‑101 (MQ=255)                                                     aGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTc                                          >  1:1433936/1‑101 (MQ=255)                                                     aGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTc                                          >  2:134227/1‑101 (MQ=255)                                                      gCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTcc                                         >  1:1193923/1‑101 (MQ=255)                                                        ccGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCgc                                       >  1:1309070/1‑100 (MQ=255)                                                        ccGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCgc                                       >  2:2462009/1‑100 (MQ=255)                                                         cGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCTCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGc                                      >  2:2072348/1‑101 (MQ=255)                                                          ggAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGcc                                     >  1:827971/1‑101 (MQ=255)                                                          ggAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGcc                                     >  2:1645849/1‑101 (MQ=255)                                                          ggAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGcc                                     >  1:1448975/1‑101 (MQ=255)                                                          ggAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGcc                                     >  1:3348402/1‑101 (MQ=255)                                                           gAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGccc                                    <  2:3626779/101‑1 (MQ=255)                                                              gccgccgccGGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCa                                 >  2:2514683/1‑101 (MQ=255)                                                               ccgccgccgGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAg                                <  1:2933458/101‑1 (MQ=255)                                                                cgccgccgGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAgg                               >  1:2597355/1‑101 (MQ=255)                                                                 gccgccgGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAggg                              >  2:729124/1‑101 (MQ=255)                                                                    gccgGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCg                           <  2:3348157/101‑1 (MQ=255)                                                                      cgGGCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAg                         >  2:3959913/1‑101 (MQ=255)                                                                       gggCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGc                        >  1:2412329/1‑101 (MQ=255)                                                                       gggCGGCGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGc                        >  1:3045243/1‑101 (MQ=255)                                                                        ggcggcGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGcc                       >  2:1752866/1‑101 (MQ=255)                                                                        ggcggcGTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGcc                       >  1:3417633/1‑101 (MQ=255)                                                                           ggcgTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCgg                    >  1:3748512/1‑101 (MQ=255)                                                                           ggcgTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCgg                    >  1:1811836/1‑101 (MQ=255)                                                                            gcgTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGc                   <  1:954470/101‑1 (MQ=255)                                                                             cgTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGcc                  >  2:2786448/1‑101 (MQ=255)                                                                             cgTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGcc                  >  2:3882217/1‑101 (MQ=255)                                                                              gTGCTGTCGCGCCTTTTCGGCCCTCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCt                 <  1:2072486/101‑1 (MQ=255)                                                                              gTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCt                 >  2:990494/1‑101 (MQ=255)                                                                              gTGCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCt                 >  2:2725887/1‑101 (MQ=255)                                                                                gCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCTCCCACGCCCGAAGCCTCTCCGGCCCCCAGGGCCGAGCCTGGCCTgc               >  2:1663985/1‑101 (MQ=255)                                                                                gCTGTCGCGCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTgc               >  2:3625933/1‑101 (MQ=255)                                                                                     cgcgCCTTTTCGGCCCTCGGCGCAAGCG.CAACCCCCCCGCCCCGTAAGCGCCCGCGCCCGAAGCCCCGCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCggg          <  2:2597164/101‑1 (MQ=255)                                                                                     cgcgCCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGCCCCGCAGGGCCGAGCCCGGCCTGCGCggg          >  1:3010143/1‑101 (MQ=255)                                                                                      gcgcCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGggt         >  2:369462/1‑101 (MQ=255)                                                                                       ccccTTTTCGGCCCGCCGCCCAAGCC.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGggtc        <  2:3275663/99‑1 (MQ=255)                                                                                        gcCTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGggtcg       <  1:3149994/101‑1 (MQ=255)                                                                                          cTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGggtcggt     >  1:1588214/1‑101 (MQ=255)                                                                                          cTTTTCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGggtcggc     >  2:3250439/1‑100 (MQ=255)                                                                                            tttCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGGGTCGGTCt   >  1:3353930/1‑101 (MQ=255)                                                                                            tttCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGGGTCGGTCt   >  1:2858190/1‑101 (MQ=255)                                                                                             ttCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGGGTCGGTCTg  <  2:1193829/101‑1 (MQ=255)                                                                                             ttCGGCCCGCCGCGCAAGCG.CAACGCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGGGTCGGTCTg  >  2:4158025/1‑101 (MQ=255)                                                                                                  |                                                                                                 CGGTCGCCTCGGCCGCGCCGGTCACGCCCGCCCCCGCCCCCACCACTCCCGCAGCCCGGAAGCCGCCGCCGGGCGGCGTGCTGTCGCGCCTTTTCGG.CCGCCGCGCAAGCG.CAA.GCCCCCGCCCCGGAAGCGCCCGCGCCCGAAGCCCCTCCGGCCCGCAGGGCCGAGCCCGGCCTGCGCGGGTCGGTCTG  >  NC_014034/3173452‑3173642 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 32 ≤  ATCG  < 39 ≤  ATCG