Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_014034	2,747,869	+G	100%	intergenic (‑201/+92)	RCAP_rcc02553 ← / ← RCAP_rcc02554	hypothetical protein/NmrA family protein

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_014034	2,747,869	1	.→G	100.0%	131.5	52	intergenic (‑201/+92)	RCAP_rcc02553/RCAP_rcc02554	hypothetical protein/NmrA family protein
Reads supporting (aligned to +/- strand):  new base (47/4):  ref base (1/0):  total (48/4)

CGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCC.GCGGCCGAGAAGCGCCCGC.C.GGCCGGCTGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGC  >  NC_014034/2747775‑2747960                                                                                                  |                                                                                            gccgtccccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCCCCACAGGGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggcc                                                                                        <  2:7299912/94‑4 (MQ=21) gatcttcccccGCCCGCGGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggcc                                                                                        <  2:5724484/94‑4 (MQ=21) cgctTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggcc                                                                                        <  2:3819234/101‑4 (MQ=21)  gcttccccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccg                                                                                       <  2:2256847/95‑5 (MQ=21)  gcgTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccg                                                                                       <  1:4731050/101‑5 (MQ=25)  cggTTGCCCCGCCCGCGCCCCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccg                                                                                       <  2:967809/99‑5 (MQ=18)  ccgtccccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccg                                                                                       <  2:1146461/95‑5 (MQ=21)    gTTCCCCCGCCCGCAGCGCCCGGTGGCGGCATGACCGCTTCAGCCCGCCCCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccggg                                                                                     <  2:3979534/101‑7 (MQ=21)     tttCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccgggc                                                                                    >  2:8585142/1‑94 (MQ=25)     ttcccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccgggc                                                                                    <  1:214124/98‑8 (MQ=21)     ttcccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccgggc                                                                                    <  2:2359694/98‑8 (MQ=21)      ttCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgc.c.gggccagatc                                                                                   >  1:5724691/1‑93 (MQ=25)            gcccgcAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGccc                                                                              >  2:3176145/1‑101 (MQ=21)                 cAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAggg                                                                         >  1:2181087/1‑101 (MQ=21)                 cAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAggg                                                                         >  1:6985203/1‑101 (MQ=21)                         ggTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTggg                                                                 >  2:105242/1‑101 (MQ=21)                          gTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGc                                                                >  1:1352811/1‑101 (MQ=18)                           tggCGCCATGACCGCTTCCGCCCGCCCCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCTGAGGGCCTTCGGGcc                                                               <  1:8848461/99‑1 (MQ=12)                                    gACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCgggggg                                                      >  2:163826/1‑100 (MQ=17)                                    gACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGt                                                      >  2:8220228/1‑101 (MQ=17)                                      ccGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTcg                                                    >  1:5674361/1‑100 (MQ=17)                                              gCCCGCACCACAGGGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACct                                            <  2:6711802/101‑1 (MQ=17)                                                       acaGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGGCACAGGACCTCTGTGACGc                                   >  1:2809451/1‑101 (MQ=14)                                                         agagGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGCGGGCCCTTGGGACCTCGGGGGGCACAGGACctcgctgaaccat                                 >  2:5602623/1‑91 (MQ=9)                                                           agGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACCGGACCTCTGTGACGCATgg                               >  1:404067/1‑101 (MQ=17)                                                             ggCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGcc                             <  1:5292657/101‑1 (MQ=18)                                                                aGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAg                          >  2:3899231/1‑101 (MQ=18)                                                                   gcccggcccgGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGGCACAGGACCTCTGTGACGCATGGCCAAGGCg                       >  2:1312199/1‑101 (MQ=18)                                                                     ccggcccgGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGAt                     >  2:8867149/1‑101 (MQ=18)                                                                      cggcccgGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATg                    >  1:6415860/1‑101 (MQ=18)                                                                      cggcccgGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATg                    >  2:6063818/1‑101 (MQ=18)                                                                       ggcccgGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATgg                   >  2:4722952/1‑101 (MQ=18)                                                                       ggcccgGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATgg                   >  2:4308773/1‑101 (MQ=18)                                                                       ggcccgGCGGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATgg                   >  1:6819173/1‑101 (MQ=18)                                                                         cccggcgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCCTGGCCAAGGCGATGGcc                 >  2:5370381/5‑101 (MQ=18)                                                                          ccggcgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCt                >  1:8779012/4‑101 (MQ=21)                                                                           cggcgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCtt               >  2:1211984/3‑101 (MQ=21)                                                                            ggggggcGAGAACCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTg              <  2:2181025/95‑1 (MQ=25)                                                                            ggcgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTg              >  1:8537440/2‑101 (MQ=21)                                                                            ggcgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTg              >  2:3722908/2‑101 (MQ=21)                                                                             gcgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTgg             >  2:5583178/1‑101 (MQ=21)                                                                              cgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGc            >  1:4959886/1‑101 (MQ=21)                                                                              cgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGc            >  1:4873770/1‑101 (MQ=21)                                                                              cgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGc            >  2:3511875/1‑101 (MQ=21)                                                                              cgGGCGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTCGGc            >  1:7856920/1‑101 (MQ=18)                                                                               ggtcGAGAGGCGCCCGC.CGGGCCGGGCGCGGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGcc           <  1:4250290/98‑1 (MQ=21)                                                                               gggcGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGcc           >  1:55928/4‑101 (MQ=21)                                                                               gggcGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGcc           >  1:5151630/4‑101 (MQ=21)                                                                                ggcGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCa          >  2:3533190/3‑101 (MQ=21)                                                                                 gcGAGGAGCGCCCGCGG.GGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCaa         >  1:8839980/2‑101 (MQ=18)                                                                                 gcGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCaa         >  2:7875370/2‑101 (MQ=21)                                                                                  cGAGAAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAg        >  2:5294380/1‑101 (MQ=21)                                                                                   gagaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAgg       >  1:1185828/1‑101 (MQ=21)                                                                                   gagaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAgg       >  1:5904015/1‑101 (MQ=21)                                                                                   gagaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAga       >  1:4981301/1‑100 (MQ=21)                                                                                    agaAGCGCCCGC.CGGGCCGGGCGCTGCCCGCGGGCCTTTGGGCCCTCGGGGGTCCCCGGACCTCTGTGACGCATGGCCCAGGCGCTCGCCTTGGCCACggc      >  2:8134864/1‑100 (MQ=18)                                                                                    agaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAggg      >  1:8469820/1‑100 (MQ=21)                                                                                    agaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGt      >  2:2305375/1‑101 (MQ=21)                                                                                    agaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGt      >  2:5188832/1‑101 (MQ=21)                                                                                    agaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGt      >  1:8713518/1‑101 (MQ=21)                                                                                     gaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGGCAAggga     >  2:4856809/1‑99 (MQ=21)                                                                                     gaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTc     >  2:5080740/1‑101 (MQ=21)                                                                                     gaAGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTc     >  2:8919093/1‑101 (MQ=21)                                                                                      aaGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCa    >  2:7650153/1‑101 (MQ=21)                                                                                       aGCGCCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAg   >  1:1524597/1‑101 (MQ=21)                                                                                        gcgcCCGC.CGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGc  >  1:1163668/1‑101 (MQ=21)                                                                                                  |                                                                                            CGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCC.GCGGCCGAGAAGCGCCCGC.C.GGCCGGCTGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGC  >  NC_014034/2747775‑2747960 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 32 ≤  ATCG  < 39 ≤  ATCG