Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_014034	1,608,033	2 bp→T	100%	intergenic (+303/‑43)	RCAP_rcc01484 → / → murD	hypothetical protein/UDP‑N‑acetylmuramoylalanine‑‑D‑glutamate ligase

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_014034	1,608,033	0	G→.	100.0%	139.8	35	intergenic (+303/‑44)	RCAP_rcc01484/murD	hypothetical protein/UDP‑N‑acetylmuramoylalanine‑‑D‑glutamate ligase
Reads supporting (aligned to +/- strand):  new base (8/27):  ref base (0/0):  total (8/27)
*	NC_014034	1,608,034	0	C→T	100.0%	122.0	35	intergenic (+304/‑43)	RCAP_rcc01484/murD	hypothetical protein/UDP‑N‑acetylmuramoylalanine‑‑D‑glutamate ligase
Reads supporting (aligned to +/- strand):  new base (8/27):  ref base (0/0):  total (8/27)

GTCTTCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCCTTGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGGCCGCGCGGCGCGGGCCCAATTCACCCCCGCAGCTTACGGA  >  NC_014034/1607939‑1608068                                                                                               |                                    tgtctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCgc.tggcgcgg                             >  1:925230/5‑101 (MQ=38)   tctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCgc.tggcgcggcc                           <  2:1676221/99‑3 (MQ=38)   tctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCgc.tggcgcggcc                           >  2:220922/3‑99 (MQ=38)   tctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCCCCTTGTCCGC.CGGCGCGGGc                           >  1:185489/3‑101 (MQ=255)   tctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCGGCGGGCCCCCCCCGTGGTCCccg.ggcgcggcc                           >  2:3053196/3‑99 (MQ=255)    ctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcc                          <  1:5289744/100‑1 (MQ=38)     tCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcca                         <  1:172114/101‑2 (MQ=38)      ccGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCaa                       <  2:825126/101‑1 (MQ=38)      ccGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAAGGGGGCCGGGGGCCCCCCCCTTTGGCC.CCCGGCGC.GGCCCaa                       >  2:2479937/1‑101 (MQ=255)       cGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAt                      >  2:2862518/1‑101 (MQ=38)       cGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAt                      >  1:4462658/1‑101 (MQ=38)       cGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAt                      <  1:1741597/101‑1 (MQ=37)        gACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGGGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAtt                     >  1:2287505/1‑101 (MQ=255)        gACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAtt                     <  2:2866053/101‑1 (MQ=37)          ccTTTTCCCAGCGGGTCCCGCGACGGGGTCCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCGCTTGGTCCGC.TGGCGC.GGCCCAATTCa                   <  1:2817568/101‑1 (MQ=255)            ttttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAcc                 >  2:2186329/1‑101 (MQ=38)            ttttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAcc                 <  2:4991401/101‑1 (MQ=37)            ttttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAcc                 <  1:1371753/101‑1 (MQ=37)             tttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCCATTCAccc                >  1:5325808/1‑101 (MQ=37)             tttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccc                <  2:1007845/101‑1 (MQ=38)             tttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAacc                >  2:1792966/1‑101 (MQ=37)              ttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAcccc               <  2:3591479/101‑1 (MQ=38)               tCCCAGCGGATCCCGCGACGGGGTGCGCCGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccccc              <  1:1677546/101‑1 (MQ=37)               tCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGGGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccccc              >  1:609280/1‑101 (MQ=37)               tCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccccc              <  1:5563054/101‑1 (MQ=37)               tCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccccc              <  1:2070352/101‑1 (MQ=38)                  catcGGATCCCGCGACGGGTTGCGACGCC.TGCGGCGCCACCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcg           <  2:1562088/98‑2 (MQ=25)                  cAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcg           >  2:4593316/1‑100 (MQ=38)                  cAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcg           >  2:3238442/1‑100 (MQ=38)                  cAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcg           >  2:2862582/1‑100 (MQ=38)                  cAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcg           <  2:2059388/101‑2 (MQ=38)                     cGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcggga        <  1:4433624/101‑5 (MQ=37)                     cGGATCCCGCGACGGGGNGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcggga        <  2:2251227/101‑5 (MQ=37)                      ggATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGGTGCGCGCCCCCCCCTTGGGCCCCTC.GCGCGGG.CCAATTCAccccccccgggg       >  1:2062712/1‑94 (MQ=255)                      ggATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggat       <  2:4658611/101‑6 (MQ=37)                      ggATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggat       <  2:731698/101‑6 (MQ=37)                      ggATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCACCGcgggct       >  1:2762902/1‑96 (MQ=37)                      ggAGCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggat       <  1:4448003/101‑6 (MQ=37)                       gATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggata      <  2:5424979/101‑7 (MQ=37)                       gATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggata      <  2:1391129/101‑7 (MQ=37)                       gATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCACGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggata      <  2:899680/101‑7 (MQ=25)                        aTCCCGCGACGGGGTGCGACGCC.TGTGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatat     <  2:5506932/101‑8 (MQ=25)                         tCCCGCGACGGGGTGCGCCGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatt    <  1:2590803/101‑9 (MQ=25)                         tCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatt    <  2:2670907/101‑9 (MQ=37)                           ccGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatttc  <  2:5472553/101‑11 (MQ=25)                                                                                               |                                    GTCTTCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCCTTGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGGCCGCGCGGCGCGGGCCCAATTCACCCCCGCAGCTTACGGA  >  NC_014034/1607939‑1608068 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG