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%	36.3 / NA	12	pseudogene (151/758 nt)	glpR	DNA‑binding transcriptional repressor GlpR
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (6/6);  total (6/6)

GATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGG  >  NC_000913/3560399‑3560510                                                          |                                                        gATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATc                                                  >  1:1689729/1‑65 (MQ=255)            ggCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGGTTTGCTc                                       >  1:2439464/1‑65 (MQ=255)              cGTGTTAGCCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCg                                     <  1:1388279/65‑1 (MQ=39)                  ttAACCGACCTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAg                                 <  1:1061764/65‑1 (MQ=39)                      ccGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGcccg                             >  1:1720456/1‑62 (MQ=39)                      ccGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCa                             <  1:1408648/65‑1 (MQ=255)                      ccGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCa                             >  1:3212481/1‑65 (MQ=255)                       cGAGCTGGAAGGCGGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCAt                            <  1:2754397/65‑1 (MQ=38)                                aGGCAGCGCCGCACCGCCATGGTGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTcgc                   >  1:2663011/1‑65 (MQ=39)                                  gCAGCGCCGCACCGCCATGATGGCGCAGGGTCAGGCTTTGCTCCGCCCGCTCATTGAGGTCgcgg                 >  1:3436422/1‑65 (MQ=255)                                  gCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCgcgg                 >  1:3951929/1‑65 (MQ=255)                                  gCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCacgg                 >  1:1502183/1‑65 (MQ=39)                                     gcgccgcgccGCGATGATGGCGGAGGATCGGGTTTTGCTCGGCCAGCTCATTGAGGTCGCGGCGa              <  1:2184449/65‑1 (MQ=255)                                          gtcccGCCTTGAGGGCGCAGGATCGGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGt         <  1:3321525/62‑1 (MQ=255)                                          gcgccGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGt         <  1:1623759/62‑1 (MQ=39)                                          gccccgccgTGGTGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGt         <  1:3315888/62‑1 (MQ=37)                                                 cATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCggg  <  1:2335969/65‑1 (MQ=255)                                                 cATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCggg  >  1:2768964/1‑65 (MQ=255)                                                          |                                                        GATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGG  >  NC_000913/3560399‑3560510

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑