Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_014034	2,747,876	2 bp→GC	100%	intergenic (‑208/+84)	RCAP_rcc02553 ← / ← RCAP_rcc02554	hypothetical protein/NmrA family protein

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_014034	2,747,876	0	C→G	100.0%	38.8	15	intergenic (‑208/+85)	RCAP_rcc02553/RCAP_rcc02554	hypothetical protein/NmrA family protein
Reads supporting (aligned to +/- strand):  new base (13/2):  ref base (0/0):  total (13/2)
*	NC_014034	2,747,877	0	T→C	100.0%	62.1	21	intergenic (‑209/+84)	RCAP_rcc02553/RCAP_rcc02554	hypothetical protein/NmrA family protein
Reads supporting (aligned to +/- strand):  new base (19/2):  ref base (0/0):  total (19/2)

CAGCCCGCACCACAGAGGGCAGCGCCCGG.CCC.GCGGCCGAGAAGCGCCCGCC.GGCCGGCTGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCATGCCAGCG  >  NC_014034/2747818‑2747971                                                              ||                                                                                               cAGCCCGCACCACAGAGGGCAGCGCCCGG.CCCGGCGGGCGAGAAGCCCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGCGGTCACAGGAc                                                         >  1:2035637/1‑101 (MQ=17)                 gggCACCGCCCGG.CCCGGCGGGCGAGACGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGc                                         <  2:359905/101‑1 (MQ=17)                   gcggcccccggcccc.GCGGCCGAGACGCCGCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCa                                       <  2:503121/95‑1 (MQ=18)                          ccgg.cccgGCGGGGGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGAt                                <  2:2035516/101‑1 (MQ=18)                           cgg.cccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATg                               >  1:2063779/1‑101 (MQ=18)                           cgg.cccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATg                               >  2:3401351/1‑101 (MQ=18)                            gg.cccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATgg                              >  2:975865/1‑101 (MQ=18)                               cccggcgGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGcc                            >  1:1009587/5‑101 (MQ=18)                                ccggcgGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCt                           >  2:3416581/4‑101 (MQ=21)                                ccggcgGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAACACGATGGCCt                           >  2:1058617/4‑101 (MQ=21)                                 cggcgGGCGAGAAGCGCCCACCGGGCCCGGAGCTACCCGAGGGCCTTTGGGCCCGCGGGGGCCACAGGACCTCGGTGACGCATGGCCAAGGCGATGGCCtt                          >  2:3020093/3‑101 (MQ=21)                                     gggcGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGcc                      >  1:2686359/4‑101 (MQ=21)                                        cGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAg                   >  1:1438350/1‑101 (MQ=21)                                        cGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAg                   >  1:4282448/1‑101 (MQ=21)                                         gagaAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAgg                  >  1:2949674/1‑101 (MQ=21)                                          agaAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGt                 >  2:2454760/1‑101 (MQ=21)                                                 cccgccgGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCa          >  1:1425880/1‑101 (MQ=21)                                                  ccgccgGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCAt         >  2:909916/1‑101 (MQ=21)                                                     ccgggccgggCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCATGcc      >  1:4564666/4‑101 (MQ=255)                                                      cgggccgggCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCATGCCa     >  1:427054/3‑101 (MQ=255)                                                        ggccgggCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCATGCCAgc   >  1:2822466/1‑101 (MQ=255)                                                        ggccgggCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCATGCCAgc   >  2:1616485/1‑101 (MQ=255)                                                        ggccgggCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCATGCCAgc   >  2:734163/1‑101 (MQ=255)                                                         gccgggCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCATGCCAgcg  >  1:3570294/1‑101 (MQ=255)                                                              ||                                                                                               CAGCCCGCACCACAGAGGGCAGCGCCCGG.CCC.GCGGCCGAGAAGCGCCCGCC.GGCCGGCTGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGGCCTTGGCCAAGGTCAGCTCATGCCAGCG  >  NC_014034/2747818‑2747971 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG