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%	129.2	36	intergenic (+298/‑49)	RCAP_rcc01484/murD	hypothetical protein/UDP‑N‑acetylmuramoylalanine‑‑D‑glutamate ligase
Reads supporting (aligned to +/- strand):  new base (7/29):  ref base (0/0):  total (7/29)

GACCGGCGCCTGTCTTCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCCTTGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGGCCGCGCGGCGCGGGCCCAATTCACCCCCGCAGCTTACGGA  >  NC_014034/1607928‑1608068                                                                                                      |                                         gcccGCCGCCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTcc                                        <  2:3995708/99‑1 (MQ=38) gcccGCCGCCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTcc                                        <  1:1655572/99‑1 (MQ=38) gACCGCCGCCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTcc                                        >  2:2903541/1‑101 (MQ=38)     gccgcCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCcgctg                                    <  2:417877/99‑3 (MQ=38)     gccgcCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCcgctg                                    <  2:3354675/99‑3 (MQ=38)       cgcCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCcgctggc                                  <  2:3878939/101‑5 (MQ=38)       cgcCTGTC.TCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCcgctggc                                  <  1:2506351/101‑5 (MQ=38)             gtctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCGAAAAGGGGGGCTGCGCGCCCCCCCCTT.GCCCCcccggcgcgg                             >  1:837581/4‑101 (MQ=255)              tctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCgc.tggcgcggcc                           <  1:779051/99‑3 (MQ=38)               ctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcc                          <  2:2466092/100‑1 (MQ=38)               ctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcc                          >  1:368559/2‑101 (MQ=38)               ctCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcc                          >  1:4203524/2‑101 (MQ=38)                tCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGCGGCcca                         <  2:558129/101‑2 (MQ=38)                  cGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAt                      <  1:2243143/101‑1 (MQ=37)                  cGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCCTGGTCCGC.TGGCGC.GGCCCAAt                      >  2:1782260/1‑101 (MQ=255)                   gACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAtt                     <  2:11731/101‑1 (MQ=37)                   gACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAAtt                     <  1:1061500/101‑1 (MQ=37)                     ccTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCa                   <  1:828935/101‑1 (MQ=37)                        tttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccc                <  2:2724014/101‑1 (MQ=38)                        tttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccc                <  1:3708017/101‑1 (MQ=37)                         ttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAcccc               >  2:3088370/1‑101 (MQ=38)                         ttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAcccc               <  1:677789/101‑1 (MQ=37)                         ttCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAcccc               <  1:959689/101‑1 (MQ=38)                          tCCCAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCAccccc              <  1:3004073/101‑1 (MQ=38)                           cccAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCg             <  2:159319/101‑1 (MQ=38)                            ccAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGc            <  1:1880069/101‑1 (MQ=38)                             cAGCGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcg           >  1:1497020/1‑100 (MQ=38)                              aGCGGATCCCGCGACGGGGTGCGACGCC.TGCAGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgg          <  1:4066694/101‑3 (MQ=37)                                cGGATCCCGCGACGGGGTGCGGCGCC.TGCGGCCCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcggga        <  1:2791024/101‑5 (MQ=25)                                cGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcggga        >  2:1869800/1‑97 (MQ=37)                                cGGATCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATCCACCCCCGcggga        >  2:1133022/1‑97 (MQ=37)                                 agATCTCGAGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGC.CCGGCCCAATCCACCCCCGcgggat       <  2:3422457/100‑6 (MQ=19)                                   gtCCCGCGGCGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatat     <  1:4066160/100‑8 (MQ=25)                                   aTCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatat     <  1:10768/101‑8 (MQ=37)                                    tCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatt    <  1:4175435/101‑9 (MQ=37)                                    tCCCGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatt    <  1:1048526/101‑9 (MQ=37)                                      ccGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatttc  <  2:3109789/101‑11 (MQ=25)                                      ccGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatttc  <  1:2662624/101‑11 (MQ=25)                                      ccGCGACGGGGTGCGACGCC.TGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGTCCGC.TGGCGC.GGCCCAATTCACCCCCGcgggatatttc  <  2:439932/101‑11 (MQ=25)                                                                                                      |                                         GACCGGCGCCTGTCTTCCGACCTTTTCCCAGCGGATCCCGCGACGGGGTGCGACGCCTTGCGGCGCCGCCCG.AAAGGGGGGCTGCGCGCCCCCCTCTTGGGCCGCGCGGCGCGGGCCCAATTCACCCCCGCAGCTTACGGA  >  NC_014034/1607928‑1608068 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 26 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG