Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,788,278	G→A	*278* (TAG→TAA)	ppsR →	PEP synthase kinase and PEP synthase pyrophosphorylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,788,278	0	G	A	100.0%	121.5 / NA	39	*278* (TAG→TAA)	ppsR	PEP synthase kinase and PEP synthase pyrophosphorylase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (21/18);  total (21/18)

TCGCGGAAGTGGAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAGAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGTCCTGCC  >  NC_000913/1788154‑1788405                                                                                                                             |                                                                                                                                  tCGCGGAAGTGGAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCAtt                                                                                                                   >  2:594213/1‑139 (MQ=255)            gAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCAt                                                                                                                    >  2:748252/1‑127 (MQ=255)            gAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCAt                                                                                                                    <  1:748252/127‑1 (MQ=255)                          tAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTa                                                                                          >  2:979249/1‑139 (MQ=255)                               aTCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAaccac                                                                                     <  1:594213/139‑1 (MQ=255)                                tCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAaccacc                                                                                    <  2:1186077/139‑1 (MQ=255)                                              ttAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTa                                                                                                  >  2:841012/1‑111 (MQ=255)                                              ttAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTa                                                                                                  <  1:841012/111‑1 (MQ=255)                                                       ccAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTAGTGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGgt                                                                           <  1:1196473/127‑1 (MQ=255)                                                       ccAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTAGTGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGgt                                                                           >  2:1196473/1‑127 (MQ=255)                                                               tCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTAtt                                                                                                           <  2:1017951/85‑1 (MQ=255)                                                               tCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTAtt                                                                                                           >  1:1017951/1‑85 (MQ=255)                                                               tCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTa                                                                                                  <  1:129774/94‑1 (MQ=255)                                                               tCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTa                                                                                                  >  2:129774/1‑94 (MQ=255)                                                                     gaagaGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATcagca                                               <  1:979249/139‑1 (MQ=255)                                                                           attcccaccaAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCagcagc                                             >  2:1193849/5‑135 (MQ=255)                                                                           aTTCCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCagcagc                                             <  1:1193849/135‑1 (MQ=255)                                                                             tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAgg                                                                            >  2:610296/1‑102 (MQ=255)                                                                             tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAgg                                                                            <  1:610296/102‑1 (MQ=255)                                                                             tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGAt                                          >  1:461745/1‑136 (MQ=255)                                                                             tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGAt                                          <  2:461745/136‑1 (MQ=255)                                                                             tGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTgg                                       >  1:1322484/1‑139 (MQ=255)                                                                               ccaccaAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGtt                                     >  2:679085/1‑139 (MQ=255)                                                                                           tCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAaccac                                                                                     >  1:756243/1‑79 (MQ=255)                                                                                           tCGATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAaccac                                                                                     <  2:756243/79‑1 (MQ=255)                                                                                             gATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCg                                                                               >  1:809627/1‑83 (MQ=255)                                                                                             gATATCATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCg                                                                               <  2:809627/83‑1 (MQ=255)                                                                                                  cATGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACt                  >  2:1193735/1‑139 (MQ=255)                                                                                                    tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCg                                                                               >  2:713690/1‑76 (MQ=255)                                                                                                    tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCg                                                                               <  1:713690/76‑1 (MQ=255)                                                                                                    tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATcag                                                 <  1:678981/106‑1 (MQ=255)                                                                                                    tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGAt                            <  2:459317/127‑1 (MQ=255)                                                                                                    tGGGCCTTAGTCGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGAt                            >  1:459317/1‑127 (MQ=255)                                                                                                    tGGGCCTTAGTAGCCGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATcag                                                 >  2:678981/1‑106 (MQ=255)                                                                                                                 ccGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGtt                                                                                                   <  1:138551/43‑1 (MQ=255)                                                                                                                 ccGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGtt                                                                                                   >  2:138551/1‑43 (MQ=255)                                                                                                                 ccGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCAt                      >  2:410330/1‑120 (MQ=255)                                                                                                                 ccGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCAt                      <  1:410330/120‑1 (MQ=255)                                                                                                                  cGAATGTACTAAAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGTCCTGcc  >  1:843647/1‑139 (MQ=255)                                                                                                                             |                                                                                                                                  TCGCGGAAGTGGAAGCCTTGTACCGTAAAAATCAGATCCCGTGGATTAACAGTACCAATTATTCGGTAGAAGAGATTGCCACCAAGATCCTCGATATCATGGGCCTTAGTCGCCGAATGTACTAGAGAACTA‑‑GTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGTCCTGCC  >  NC_000913/1788154‑1788405

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑