Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,560,455	+G	pseudogene (151/758 nt)	glpR ←	DNA‑binding transcriptional repressor GlpR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,560,455	1	.	G	100.0%	42.4 / NA	14	pseudogene (151/758 nt)	glpR	DNA‑binding transcriptional repressor GlpR
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (9/5);  total (9/5)

GGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGT  >  NC_000913/3560391‑3560503                                                                  |                                                 ggtcTTGCGATCGTGGCACGGCGGGTGAACCAAACTGGAAGGCAGCGCCGCACCGCCATGATGGc                                                   <  1:634065/62‑1 (MQ=255)  gCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGcg                                                  >  1:2410805/1‑64 (MQ=255)    cTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGcgcc                                                >  1:1054749/1‑62 (MQ=255)    cTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCAATGATGGcgca                                                >  1:1082224/1‑62 (MQ=255)        cGATCGTGCCACGGCGTGTTAACCGAACGGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGAt                                            <  1:1665753/65‑1 (MQ=255)            cGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAgg                                        >  1:2238939/1‑65 (MQ=255)              tGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGtt                                      >  1:1627515/1‑65 (MQ=255)                     gggtgtTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTcc                               <  1:1901372/63‑1 (MQ=255)                          ttAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAg                          <  1:967948/65‑1 (MQ=255)                           tagccGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGc                         <  1:2186206/62‑1 (MQ=39)                              ccGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGGTCa                      >  1:1373703/1‑65 (MQ=39)                              ccGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCa                      >  1:2163465/1‑65 (MQ=255)                              ccGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCa                      >  1:684208/1‑65 (MQ=255)                                       aaGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTcg             >  1:2375564/1‑65 (MQ=255)                                          gCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCgggg          >  1:794317/1‑65 (MQ=39)                                          gCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGCCgcgg          >  1:2153897/1‑65 (MQ=39)                                          gCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGCTTTGCTCCGCCAGCTCATTGAGGTCgcgg          >  1:867732/1‑65 (MQ=255)                                            aGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCgcggcg        >  1:402105/1‑65 (MQ=255)                                               gccgcACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAAt     >  1:875625/1‑65 (MQ=255)                                                  ccACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGt  <  1:2521024/64‑1 (MQ=39)                                                                  |                                                 GGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGT  >  NC_000913/3560391‑3560503

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑