Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_014034	2,330,291	C→G	100%	intergenic (+266/+46)	RCAP_rcc02161 → / ← mrcA	hypothetical protein/penicillin‑binding protein 1A

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_014034	2,330,291	0	C→G	100.0%	95.6	46	intergenic (+266/+46)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Reads supporting (aligned to +/- strand):  new base (25/21):  ref base (0/0):  total (25/21)

CGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG....G.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGT  >  NC_014034/2330193‑2330372                                                                                                    |                                                                                              cGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccggg                                                                                             >  1:3863422/1‑101 (MQ=255)  gTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCCCCGGCGGCCCCGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg                                                                                            >  1:1626452/1‑101 (MQ=255)  gTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg                                                                                            >  1:4430674/1‑101 (MQ=255)   tATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGGCCCGG.ATCACAGGCGGCCCGGGCGGATTTCACCTGGGGCCAAAGAtcccgggggtccggggg                                                                                           >  1:3013816/1‑101 (MQ=255)   tATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCCGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccggggg                                                                                           >  1:3782713/1‑101 (MQ=255)    aTTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggc                                                                                          >  1:4748542/1‑100 (MQ=255)    aTTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggc                                                                                          <  1:2449561/101‑2 (MQ=255)    aTTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggc                                                                                          <  1:4637802/101‑2 (MQ=255)    aTTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggc                                                                                          >  1:1126542/1‑100 (MQ=255)      ttGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcgg                                                                                        <  2:1345793/101‑4 (MQ=255)      ttGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcgg                                                                                        <  1:1685990/101‑4 (MQ=255)         cgcCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcggagc                                                                                     <  2:2826191/101‑7 (MQ=255)         cgcCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcggagc                                                                                     >  2:1677319/1‑95 (MQ=255)         cgcCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccggggggccgggggcggagc                                                                                     >  2:3525327/1‑95 (MQ=255)           ccAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcggagccc                                                                                   >  2:4700359/1‑93 (MQ=255)           ccAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcggagccc                                                                                   >  1:472191/1‑93 (MQ=255)            cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcggagcccc                                                                                  >  2:3186183/1‑92 (MQ=38)            cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcggagcccc                                                                                  <  2:3926916/101‑10 (MQ=38)             aaGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggggcggagccccc                                                                                 <  2:964445/101‑11 (MQ=38)                        ggggCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGcc                                                                >  2:4538002/1‑101 (MQ=25)                        ggggCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGcc                                                                >  2:3432579/1‑101 (MQ=25)                              cgcgggCGGGCCCCCGG.ATCCCGGGCGGCCCGGGC.GCCTTCCCCCGGGGCCAAAAGACCCGGGGGGCCGGGGG....GCGGCCCCCCC.GGCGGGTCGCCGAGGCa                                                          <  2:3484496/96‑1 (MQ=9)                                 aTGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCg                                                       <  2:767480/101‑1 (MQ=25)                                  gggcgggCCCCGGCACCCCCGGCGGCCCGGGCGGTTTCCCCCGGGGGCAAAAGACCCGGGGGGCCGGGGGG....GGGA..CCCCCGGGCGGGTCGCCGAGGCATCg                                                       <  2:472147/97‑1 (MQ=255)                                     ggggCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTc                                                   <  1:1852478/101‑1 (MQ=25)                                     ggggCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGCGGCGTccgctc                                                   >  2:3883360/1‑96 (MQ=18)                                       ggCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGGGCCGGGGCGGCGGCTC.gg                                                >  2:4418041/1‑101 (MQ=16)                                              g.ATCCCCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATc                                        <  2:1569853/101‑1 (MQ=21)                                                  cccggggggcCGGGGCGGTTTCCACCGGGGGCAAAAGATCCGGGGGGTCGGGGGG....GGGGC.CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATccgt                                     <  1:4002500/94‑3 (MQ=12)                                                   cccGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCtt                                    <  1:1128621/100‑1 (MQ=21)                                                    ccGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGGGGGACCGCCCC.CGCGGAAACCCCtt                                    >  2:1305341/1‑101 (MQ=9)                                                     cggcggCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAg                                  <  1:3565725/101‑1 (MQ=25)                                                      ggcggcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGt                                 <  1:4327313/101‑1 (MQ=25)                                                        cggcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGCGGGATCGCCCC.GGC.GAAAACCCCTTGTaa                               >  1:2896382/1‑101 (MQ=12)                                                         ggcCGGGGCGGCTTTCACCTGGGGCCAAAGACCCGGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTaaa                              <  2:1204711/101‑1 (MQ=21)                                                         ggcCCGGGCGGCTTTCCCCGGGGGCCAAAGATCCCGGGGGTCGGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTaaa                              <  2:3384193/101‑1 (MQ=21)                                                          gcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAg                             <  1:3967738/101‑1 (MQ=25)                                                          gcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGCGGGCCCCCCTC.CGC.GAACACCCTTCGTaaaa                             >  2:2540011/1‑100 (MQ=9)                                                           ccggggCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGa                            <  2:224891/98‑1 (MQ=21)                                                           ccggggCGGC.TTCCCCCGGGGGCAAAGGACCCGGGGGGCCGGGGG....GCGGA.CCCCCGGGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGa                            <  1:2911336/98‑1 (MQ=255)                                                            ccGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGGGGGAACGCCCC.CGCGGAAAACCCtcgtcaaaac                            >  1:3262484/1‑92 (MQ=2)                                                             cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGGGGGATCGCCCC.GGCGGAAAACCCtcttcaaaaac                           >  2:3401721/1‑91 (MQ=9)                                                             cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGGGGCGTCGCCCCGGGG.GAAACCCCTTGTTAAAAAc                           >  1:3856951/1‑101 (MQ=9)                                                              gggCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGGGCCGCGGCATCGGCTC.GCC.GGACGCCCCTAATAAACAccg                         >  1:493771/1‑101 (MQ=9)                                                               ggcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGAccgc                        <  2:4730808/101‑1 (MQ=25)                                                               ggcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGAccgc                        <  1:3557513/101‑1 (MQ=25)                                                                gcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGAccgcc                       <  2:2817226/101‑1 (MQ=25)                                                                 cggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGAccgccc                      <  2:3193896/101‑1 (MQ=25)                                                                  ggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGAGGGATCGCCCC.CGC.GGAAACCCTTTGTAAAAAacgcccc                     >  1:784390/1‑100 (MQ=9)                                                                   gcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGGGCCGAGGGATCGCCCC.CGC.GAAAACCCTTAGTAAAAAacgccccc                    >  1:4642127/1‑99 (MQ=12)                                                                   gcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGAGGCATCGCCCC.GGC.GAAATCCCTTTGTAAAGAccgcccgc                    >  1:2296432/1‑101 (MQ=21)                                                                     tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCCCCTC.CGC.GTAAAACCTTACTAAAAAACACCCCCgg                  >  1:2909700/1‑101 (MQ=9)                                                                      ttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCCGGGGATCGCCCC.CGC.GAAAAACCCTAGTAAAAAacgccccccgg                 >  1:3726270/1‑96 (MQ=2)                                                                       tCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGCCCGCCCGCGGAc                <  1:2561865/101‑1 (MQ=21)                                                                       ccccgtGGGGCAAAAGACCCCGGGGGCCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGACCGCCCGCGGAc                <  2:2763526/96‑1 (MQ=18)                                                                         aCCGGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGACCGCCCGCGGACAg              <  2:4450498/101‑1 (MQ=21)                                                                              gggCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGGCCAGGCCGCGCCCC.CTC.GGAAATCCTTAGTAAAAAACCCCCGCCGACAGGGGTc         >  1:1537311/1‑101 (MQ=2)                                                                               ggCCAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATcc        <  2:3021403/101‑1 (MQ=21)                                                                                 ccAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGAGGCATCGCCCC.CGC.GAAAACCCCTAGTAAAAACCGCCCGCGGACAAGGAGCCGa      >  2:3109316/1‑101 (MQ=12)                                                                                  cAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGGGGGCTCGCCCC.CGG.GGAAACCCCTAGTAAAGAACGCCCCCGGGCAGGGGTCCGaa     >  1:2729159/1‑101 (MQ=0)                                                                                  cAAAGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGCGGGATCGCCCC.GGC.GAAAACCCTTAGTAAAAAACGCCCGCGGGCAGGGATCCgga     >  2:4675243/1‑99 (MQ=9)                                                                                  cAAAGACCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGaa     <  1:4262192/101‑1 (MQ=21)                                                                                   aaaGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAg    <  1:1548351/101‑1 (MQ=21)                                                                                   aaaGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGCAGAATCGCCTC.GGC.GCAAAGCCCTCTTTATTACCGCCCCCGGACAGGGAGGCGAAg    >  2:2596258/1‑101 (MQ=0)                                                                                   aaaGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGAGGGCTCGCCTC.CGC.GCAAACCCCTTCTAAAAACCCCCCCCGGGGAggggaccgcag    >  1:1864919/1‑93 (MQ=0)                                                                                   aaaGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGAGGCATCGCCTC.GGC.GAAAACCCTTAGTAAAAAACGCCCGCGGGCAGGGATCCGAAg    >  1:2147643/1‑101 (MQ=18)                                                                                    aaGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGGCGGGGGGTCGCCCC.CGCGGAAACCCCTTA.TAAAAACCGCCCGCGGGCAGGGAGCCGGAgg   >  1:1042408/1‑101 (MQ=0)                                                                                     aGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGt  <  2:540983/101‑1 (MQ=25)                                                                                     aGATCCCGGGGGTCCGGGGGCGGAG.....CCCCC.GGCGGGGCGCCGAGGGATCGCCTC.GGC.GAAATCCCCTAGTAAAAACCCCCCGCGGGCCAGGATCCGCAggg  >  2:2844906/1‑100 (MQ=9)                                                                                                    |                                                                                              CGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGG.ATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG....G.....CCCCC.GGCGGGTCGCCGAGGCATCGCCTC.GGC.GAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGT  >  NC_014034/2330193‑2330372 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 26 ≤  ATCG  < 33 ≤  ATCG  < 41 ≤  ATCG