Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_014034	1,608,028	G→T	100%	intergenic (+298/‑49)	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	1,608,028	0	G→T	100.0%	125.7	37	intergenic (+298/‑49)	RCAP_rcc01484/murD	hypothetical protein/UDP‑N‑acetylmuramoylalanine‑‑D‑glutamate ligase
Reads supporting (aligned to +/- strand):  new base (7/30):  ref base (0/0):  total (7/30)

ACCGGCGCCTGTCTTCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCCTTGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGGCCGCGCGGCGCGGGCCCAATTCACCCCCGCAGCTTACGGA  >  NC_014034/1607929‑1608068                                                                                                    |                                         gcggccgcCTGTC.TCCGCCCTTTTCCCAGCGGAGCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCcg                                       <  2:3655546/96‑1 (MQ=37)    gccgcCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCcgctg                                    <  2:3559641/99‑3 (MQ=38)    gccgcCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCcgctg                                    >  1:1398691/3‑99 (MQ=38)    gccgcCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCcgctg                                    <  1:329847/99‑3 (MQ=38)           tgtctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCgc.tggcgcgg                             >  2:3297272/5‑101 (MQ=38)            gtctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCCCTTGGTCCgc.tggcgcggc                            >  1:2448230/4‑100 (MQ=255)             tctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCGCCCTCTTGGTCCgc.tggcgcggcc                           >  2:1392734/3‑99 (MQ=255)              ctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcc                          <  2:2165764/100‑1 (MQ=38)              ctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcc                          <  1:2377146/100‑1 (MQ=38)              ctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcc                          >  2:181299/2‑101 (MQ=38)              ctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAA.GGGGGCCGCGCCGCCCCCCCTTGGGTC.CGCTGGGCGGGccc                         >  2:211589/2‑101 (MQ=255)               tCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcca                         <  2:266780/101‑2 (MQ=38)               tCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcca                         <  2:1218787/101‑2 (MQ=38)                ccGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCaa                       <  2:4017710/101‑1 (MQ=38)                  gACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAtt                     <  1:3330323/101‑1 (MQ=37)                  gACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAtt                     <  1:1044462/101‑1 (MQ=37)                   aacTTTTCCCCGCCGCTCCCGCGGAGGGGGGCGCCGCC.TGCGAAGTCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGTCGC.GGCCCAATTc                    <  2:802030/99‑1 (MQ=12)                   aCCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTc                    <  1:4333203/101‑1 (MQ=37)                   aCCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTc                    >  2:4428933/1‑101 (MQ=38)                   aCCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTc                    <  1:1583231/101‑1 (MQ=38)                   aCCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTc                    <  2:1713126/101‑1 (MQ=37)                    ccTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCCCCattca                    >  1:2391175/1‑97 (MQ=37)                    ccTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCa                   <  1:1579310/101‑1 (MQ=38)                     cTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAc                  <  2:17201/101‑1 (MQ=37)                     cTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAc                  >  2:2046518/1‑101 (MQ=38)                       tttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccc                <  1:4429183/101‑1 (MQ=37)                        ttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAcccc               <  2:4616081/101‑1 (MQ=38)                         tCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCCccccc              >  2:4523784/1‑101 (MQ=37)                         tCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccccc              >  1:2689636/1‑101 (MQ=38)                          ccgaGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCg             <  2:2195735/98‑1 (MQ=37)                          cccAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCg             <  2:1673001/101‑1 (MQ=38)                           ccAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGc            <  1:2600988/101‑1 (MQ=38)                           ccAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.CTGGGC.GGCCCCATTCACCCCCGc            >  2:1739097/1‑101 (MQ=37)                           ccAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCCCTTCGGCCGC.CGGGGC.GGCCCCATTCAccccccc            >  2:3393685/1‑99 (MQ=255)                            cAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcg           <  1:4257637/101‑2 (MQ=38)                             aGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgg          <  2:2351171/101‑3 (MQ=37)                             aGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACACCCGcgg          >  2:1005174/1‑99 (MQ=37)                               cGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcggga        <  2:1903421/101‑5 (MQ=37)                                ggATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggat       <  1:4507243/101‑6 (MQ=37)                                ggATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggat       <  1:3547005/101‑6 (MQ=37)                                 gATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggata      <  1:1056619/101‑7 (MQ=37)                                  aTCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCCCCCCCGcgggatat     <  1:1270878/101‑8 (MQ=25)                                   tCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatt    <  1:12134/101‑9 (MQ=37)                                    cccGCGACGGGGTGCGCCGCC.CGCGGCGCCCCCCGCAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatattt   <  1:754508/101‑10 (MQ=19)                                     ccGGGACGGGGTGCGACGCC.TGCGGCGCCGCCCTAAAGGGGGCCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatttc  <  1:2458652/101‑11 (MQ=255)                                                                                                    |                                         ACCGGCGCCTGTCTTCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCCTTGCGGCGCCGCCCGAAAGGGGGGCTGCGCGCCCCCCTCTTGGGCCGCGCGGCGCGGGCCCAATTCACCCCCGCAGCTTACGGA  >  NC_014034/1607929‑1608068 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG