Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_014034	2,747,849	+G	100%	intergenic (‑181/+112)	RCAP_rcc02553 ← / ← RCAP_rcc02554	hypothetical protein/NmrA family protein

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_014034	2,747,849	1	.→G	100.0%	128.6	46	intergenic (‑181/+112)	RCAP_rcc02553/RCAP_rcc02554	hypothetical protein/NmrA family protein
Reads supporting (aligned to +/- strand):  new base (14/32):  ref base (0/0):  total (14/32)

GTTCGGGCGGAATAGGAAACGCGACCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCC.GCGGCCGAGAAGCGCCCGCC.GGCCGGCTGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGG  >  NC_014034/2747749‑2747943                                                                                                      |                                                                                                gtgggcgCGGAATAGGAACCGCGACCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc                                                                                                  <  2:3873504/95‑1 (MQ=39) gtgcGGGGGGAATGGGAACCGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc                                                                                                  <  1:2243720/98‑1 (MQ=255) gTTGGGGCGGAATGGGAACCGCGACCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc                                                                                                  <  2:8837394/101‑1 (MQ=255) gTTCGGGCGGAATAGGAAACGCGACCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc                                                                                                  <  1:3822545/101‑1 (MQ=255) gTTCGGGCGGAAGAGGAACCGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc                                                                                                  <  1:3447826/101‑1 (MQ=255) gTTCGGAGGAAATAGAAGACGCGACCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc                                                                                                  <  2:7475583/101‑1 (MQ=38)  ttCGGGGGGAATAGGAAACGCGACCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCGCCACAGAGGGCAGCgcccggccc.g                                                                                                <  1:5799153/101‑1 (MQ=255)  ttCGGGCGGAATAGGAACCGCGCCCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.g                                                                                                <  1:8510855/101‑1 (MQ=255)  ttCGGGCGGAATAGGAAACGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.g                                                                                                <  1:9134807/101‑1 (MQ=255)  ttCGGGCGGAATAGGAAACGCGACCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.g                                                                                                <  1:1122396/101‑1 (MQ=255)  tgcGGGCGGAATAGGAACCGCGCCCCGCTTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.g                                                                                                <  1:7056725/99‑1 (MQ=255)    cGGGCGGAATAGGAACCGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.ggc                                                                                              <  1:2104083/101‑3 (MQ=255)    cGGGCGGAATAGGAAACGCGCCCCGCGTTTCCGCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.ggc                                                                                              <  2:6757168/101‑3 (MQ=255)    cGGGCGGAATAGGAAACGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.ggc                                                                                              <  2:1609274/101‑3 (MQ=255)     gggGGGAATAGGAAACGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.ggcg                                                                                             <  1:3497249/101‑4 (MQ=39)        ggaaaTAGGAACCGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.ggcgggc                                                                                          <  2:7940208/98‑7 (MQ=37)         ggAATAGAAAACGCGACCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.ggcgggcg                                                                                         <  2:2637506/101‑8 (MQ=255)         gaaaTAGGAAACCCCACCCCCTTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.ggcgggcg                                                                                         <  1:4211044/99‑8 (MQ=25)          gAATAGGAAACGCGACCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCgcccggccc.ggcgggcgg                                                                                        >  1:2256914/1‑93 (MQ=255)           aaTAGAAACCGCGCCCCGCTTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCgag                                                                                        <  2:879195/101‑1 (MQ=25)            atgggAACCGCGCCCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCgaga                                                                                       <  2:2030423/98‑1 (MQ=25)            aTAGGAACCGCTCCCCGGTTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCgaga                                                                                       <  1:1700685/101‑1 (MQ=25)            aTAGGAACCGCGACCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCgaga                                                                                       <  1:2581006/101‑1 (MQ=37)            aTAGGAAACGCGCCCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCgaga                                                                                       <  1:1067678/101‑1 (MQ=37)             tAGGAAACGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGaa                                                                                      <  2:4362125/101‑1 (MQ=37)             tAGGAAACGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGaa                                                                                      <  1:859048/101‑1 (MQ=37)              agcaaccgcgCCCGGCTTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAg                                                                                     <  1:8945700/95‑1 (MQ=21)              aGGAAACGCGCCCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAg                                                                                     <  1:704783/101‑1 (MQ=37)               ggAACCGCGCCCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAgc                                                                                    <  1:3107227/101‑1 (MQ=25)               ggAACCGCGACCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAgc                                                                                    <  2:3432653/101‑1 (MQ=25)                gAACCGCGCCCCGGGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAgcg                                                                                   <  2:1029349/101‑1 (MQ=25)                gAACCGCGCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAgcg                                                                                   <  2:6912883/101‑1 (MQ=25)                  accgcgCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGcgcc                                                                                 <  1:8768519/99‑1 (MQ=25)                  accccgccccGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGcgcc                                                                                 <  1:4908380/94‑1 (MQ=25)                  aaCGCGCCCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGcgcc                                                                                 <  2:5534038/101‑1 (MQ=25)                   ccgcgGCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGcgccc                                                                                <  2:1555951/100‑1 (MQ=25)                   ccgcgCCCCGCTTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGcgccc                                                                                <  1:8440351/100‑1 (MQ=25)                    cgcgCCCCGCGTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGcgcccg                                                                               <  1:2062264/101‑1 (MQ=25)                     gggACCCGCTTTGCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGcgcccgc                                                                              <  1:8997756/99‑1 (MQ=25)                           gccgtccccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCCCCACAGGGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggcc                                                                       <  2:7299912/94‑4 (MQ=21)                           gatcttcccccGCCCGCGGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggcc                                                                       <  2:5724484/94‑4 (MQ=21)                           cgctTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggcc                                                                       <  2:3819234/101‑4 (MQ=21)                            gcttccccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccg                                                                      <  2:2256847/95‑5 (MQ=21)                            gcgTTCCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccg                                                                      <  1:4731050/101‑5 (MQ=25)                            cggTTGCCCCGCCCGCGCCCCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccg                                                                      <  2:967809/99‑5 (MQ=18)                            ccgtccccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccg                                                                      <  2:1146461/95‑5 (MQ=21)                              gTTCCCCCGCCCGCAGCGCCCGGTGGCGGCATGACCGCTTCAGCCCGCCCCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccggg                                                                    <  2:3979534/101‑7 (MQ=21)                               tttCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccgggc                                                                   >  2:8585142/1‑94 (MQ=25)                               ttcccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccgggc                                                                   <  1:214124/98‑8 (MQ=21)                               ttcccccGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccgggc                                                                   <  2:2359694/98‑8 (MQ=21)                                ttCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCgcc.gggccagatc                                                                  >  1:5724691/1‑93 (MQ=25)                                      gcccgcAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGccc                                                             >  2:3176145/1‑101 (MQ=21)                                           cAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAggg                                                        >  1:6985203/1‑101 (MQ=21)                                           cAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAggg                                                        >  1:2181087/1‑101 (MQ=21)                                                   ggTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTggg                                                >  2:105242/1‑101 (MQ=21)                                                    gTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGc                                               >  1:1352811/1‑101 (MQ=18)                                                     tggCGCCATGACCGCTTCCGCCCGCCCCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCTGAGGGCCTTCGGGcc                                              <  1:8848461/99‑1 (MQ=12)                                                              gACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCgggggg                                     >  2:163826/1‑100 (MQ=17)                                                              gACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGt                                     >  2:8220228/1‑101 (MQ=17)                                                                ccGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTcg                                   >  1:5674361/1‑100 (MQ=17)                                                                        gCCCGCACCACAGGGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACct                           <  2:6711802/101‑1 (MQ=17)                                                                                 acaGAGGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGGCACAGGACCTCTGTGACGc                  >  1:2809451/1‑101 (MQ=14)                                                                                   agagGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGCGGGCCCTTGGGACCTCGGGGGGCACAGGACctcgctgaaccat                >  2:5602623/1‑91 (MQ=9)                                                                                     agGGCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACCGGACCTCTGTGACGCATgg              >  1:404067/1‑101 (MQ=17)                                                                                       ggCAGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGcc            <  1:5292657/101‑1 (MQ=18)                                                                                          aGCGCCCGGCCCGGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAg         >  2:3899231/1‑101 (MQ=18)                                                                                             gcccggcccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGGCACAGGACCTCTGTGACGCATGGCCAAGGCg      >  2:1312199/1‑101 (MQ=18)                                                                                               ccggcccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGAt    >  2:8867149/1‑101 (MQ=18)                                                                                                cggcccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATg   >  2:6063818/1‑101 (MQ=18)                                                                                                cggcccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATg   >  1:6415860/1‑101 (MQ=18)                                                                                                 ggcccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATgg  >  1:6819173/1‑101 (MQ=18)                                                                                                 ggcccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATgg  >  2:4722952/1‑101 (MQ=18)                                                                                                 ggcccgGCGGGCGAGAAGCGCCCGCCGGGCCGGGCGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATgg  >  2:4308773/1‑101 (MQ=18)                                                                                                      |                                                                                                GTTCGGGCGGAATAGGAAACGCGACCCGCGTTTCCCCGCCCGCAGCGCCCGGTTGCGGCATGACCGCTTCAGCCCGCACCACAGAGGGCAGCGCCCGGCCC.GCGGCCGAGAAGCGCCCGCC.GGCCGGCTGCTGCCCGAGGGCCTTTGGGCCCTCGGGGGTCACAGGACCTCTGTGACGCATGGCCAAGGCGATGG  >  NC_014034/2747749‑2747943 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG