Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,393,223	A→G	intergenic (+333/‑4)	pgrR → / → mppA	murein peptide degradation regulator/murein tripeptide (L‑ala‑gamma‑D‑glutamyl‑meso‑DAP) transporter subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,393,223	0	A	G	100.0%	132.4 / NA	37	intergenic (+333/‑4)	pgrR/mppA	murein peptide degradation regulator/murein tripeptide (L‑ala‑gamma‑D‑glutamyl‑meso‑DAP) transporter subunit
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (27/10);  total (27/10)

AGACTATTATTTACACTAAATCTGATTTGATATATTGATACTTAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAACTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTGCGCCACATTAAAGATGAGCCTGCGTCGCTG  >  NC_000913/1393075‑1393370                                                                                                                                                     |                                                                                                                                                    agaCTATTATTTACACTAAATCTGATTTGATATATTGATACTTAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCt                                                                                                                                                   >  1:119673/1‑151 (MQ=255)         attTACACTAAATCTGATTTGATATATTGATACTTAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGc                                                                                                                                           >  1:359509/1‑151 (MQ=255)                         aTTTGATATATTGATACTTAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCAc                                                                                                                           >  2:185567/1‑151 (MQ=255)                          tttGATATATTGATACTTAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACg                                                                                                                          >  2:660773/1‑151 (MQ=255)                                atatTGATACTTAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGtgttgt                                                                                                                    >  1:520801/1‑151 (MQ=255)                                 tatTGATACTTAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTtgtg                                                                                                                   >  1:532751/1‑151 (MQ=255)                                          ttAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTgg                                                                                                          >  1:83711/1‑151 (MQ=255)                                           tAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGt                                                                                                         >  1:182549/1‑151 (MQ=255)                                            aaaaCATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGt                                                                                                         <  2:398252/150‑1 (MQ=255)                                            aaaaCATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGt                                                                                                         <  2:178431/150‑1 (MQ=255)                                               aCATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTcagc                                                                                                     >  2:514976/1‑151 (MQ=255)                                                cATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTcagc                                                                                                     >  2:325307/1‑150 (MQ=255)                                                 aTTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTcagcag                                                                                                   <  1:578666/151‑1 (MQ=255)                                                 aTTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTca                                                                                                       >  2:353141/1‑147 (MQ=255)                                                            ccTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCttt                                                                                        >  1:39007/1‑151 (MQ=255)                                                              tttGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTc                                                                                       >  2:557045/1‑150 (MQ=255)                                                               ttGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTc                                                                                       <  1:283394/149‑1 (MQ=255)                                                                tGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGt                                                                                     >  2:562708/1‑150 (MQ=255)                                                                tGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGt                                                                                     >  1:17945/1‑150 (MQ=255)                                                                 gTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTAt                                                                                   >  1:131549/1‑151 (MQ=255)                                                                    aCTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTAtgct                                                                                >  1:80165/1‑151 (MQ=255)                                                                    aCTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTAtgct                                                                                <  2:515700/151‑1 (MQ=255)                                                                           tGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGaa                                                                          <  2:351915/150‑1 (MQ=255)                                                                                    ttgttTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCg                                                                >  2:288227/1‑151 (MQ=255)                                                                                     tgttTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCgg                                                               >  1:187015/1‑151 (MQ=255)                                                                                              ttCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACt                                                      >  2:157492/1‑151 (MQ=255)                                                                                                      ggCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAgaga                                              <  1:557061/151‑1 (MQ=255)                                                                                                               aataatTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGc                                     >  2:170992/1‑151 (MQ=255)                                                                                                                  aatTACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTgg                                  >  1:252828/1‑151 (MQ=255)                                                                                                                    ttACGCATCAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTg                                >  1:360838/1‑151 (MQ=255)                                                                                                                            cAATTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTGCGCCACAt                        >  1:402984/1‑151 (MQ=255)                                                                                                                              agtttAATGTCGGTTAGAGGGAAGCGTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTACGTAGGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTCGTGCGCCACAtt                       <  2:234420/148‑1 (MQ=255)                                                                                                                              aTTTTAATGTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTGCGCCACAtt                       >  1:552439/1‑150 (MQ=255)                                                                                                                                      gTCGGTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTGCGCCACATTAAAGATGAg              <  2:86846/151‑1 (MQ=255)                                                                                                                                         ggTTAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTGCGCCACATTAAAGATGAGCCt           >  2:394688/1‑151 (MQ=255)                                                                                                                                           ttAGAGGGAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTGCGCCACATTAAAGATGAGCCTGc         >  2:339182/1‑151 (MQ=255)                                                                                                                                                  gAAGCTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTGCGCCACATTAAAGATGAGCCTGCGTCGCTg  <  2:200757/151‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                    AGACTATTATTTACACTAAATCTGATTTGATATATTGATACTTAAAACATTTGATGCTTCCTTTGTCACTTTTTTGATGGAAGTTGTTTGCATTTCTTTAAGGCGAAACAAATAATTACGCATCAATTTTAATGTCGGTTAGAGGGAAACTTATGAAGCACTCTGTTTCAGTCACGTGTTGTGCGCTGTTGGTCAGCAGCATTTCTCTTTCGTATGCTGCAGAAGTTCCGAGCGGCACAGTACTGGCAGAGAAGCAGGAGCTGGTGCGCCACATTAAAGATGAGCCTGCGTCGCTG  >  NC_000913/1393075‑1393370

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑