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%	70.6 / NA	25	pseudogene (151/758 nt)	glpR	DNA‑binding transcriptional repressor GlpR
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (14/11);  total (14/11)

TCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGT  >  NC_000913/3560314‑3560591                                                                                                                                               |                                                                                                                                          acaaTAAGCAGCGTCGAGCCATTGGGGACTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGcg                                                                                                                                           <  1:282203/140‑2 (MQ=255)   gATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGACGGCAGCGCCGCACCGCCATGAGGGcgaa                                                                                                                                         >  2:549073/1‑140 (MQ=255)                    cATTGGGTATGTGTTCCGCCTCTTTGCGGGGGATGCGGTTTTTTTGTTCGGTATGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTcc                                                                                                                        <  1:441597/143‑1 (MQ=255)                       tGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCGGGAGATCGAGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGAAGGCGCAGGAGCAGGTGTTGCTCCGcc                                                                                                                     >  2:454951/1‑143 (MQ=255)                          ggATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGGCTGGGTGGCCTTGCGCTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGCTTTGCTccgcccgc                                                                                                                  >  2:366822/1‑143 (MQ=255)                           gATTTGCTCCGCCACTTTGCGGGCGATGCGCCCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCCCCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCt                                                                                                                 >  1:769678/1‑143 (MQ=255)                               ggCTCCGCCACTTGGCGGGCGATGCGCTCTTTTTCTTCGATCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGCATCAGGTTTTGCTCCGCCAGCTCAtt                                                                                                             <  2:747462/142‑1 (MQ=255)                                  tCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCGCATTGAg                                                                                                          >  1:664518/1‑143 (MQ=255)                                       cACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑cgc                                                                                                    >  1:302003/1‑143 (MQ=255)                                              cGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGACGTGTTAACCGAACAGGAAGGCAGCGACGCCACGCCATGATGGCGCACGATCAGGTTACGATCCGCCACCGTATTGACGA‑CACGGCGAAt                                                                                             >  2:585599/1‑143 (MQ=255)                                                            tttttCTGCGGTCTGGGGGGCCTTGCGATGGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGa                                                                               <  1:385033/143‑1 (MQ=255)                                                                 cttcGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGgag                                                                          <  1:165815/143‑1 (MQ=255)                                                                 cttcGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATCGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGgag                                                                          >  2:729293/1‑143 (MQ=255)                                                                               gCCTCGCGCTCGGGCCGCGGCGTGTTAGCCGGACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGCGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAg                                                            <  1:39154/143‑1 (MQ=255)                                                                                       aTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGTAATGCTCTACCAGCTCTTCgg                                                    >  1:762171/1‑143 (MQ=255)                                                                                                    gcgtTCACCGAACTGGCAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCACTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAAcc                                       <  1:704378/141‑1 (MQ=255)                                                                                                       ttAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctg                                    >  2:586251/1‑143 (MQ=255)                                                                                                       ttAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATAAAGTACTCAAGGGCCATTGCATTGAGCT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTACGGTACGGACATACCCctg                                    >  2:164487/1‑143 (MQ=255)                                                                                                        tagccGAACCGGAAGGCAGCGCCGCACCGCCATGATGCCGCGGCATCAGGTTTTGCTCAGATAG‑TCCTTCAATTACTCCTCAAACACATTTAGGTGTTTCGGTTAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgc                                   <  1:362243/140‑1 (MQ=255)                                                                                                        tAACCGACCTGGAAGGCCGCGCCCCACCGCGATGATGGCGCAGGCTCGCATATATCCCCCCCAGGCTGCGGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgc                                   <  2:345398/143‑1 (MQ=255)                                                                                                          aCCGAACTGGAAGGCAGAGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGACATGCTCTACCAGCTCTTCGGTACTGACATAACCgtgctg                                 >  1:256923/1‑143 (MQ=255)                                                                                                              aaCTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGGCATAACCCTGCTGTTTa                             >  1:521057/1‑143 (MQ=255)                                                                                                                     aGGCAGCGCCGCACCGCCATGATGGCGCAGGATCTGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGtt                      <  2:444439/143‑1 (MQ=255)                                                                                                                      ggCAGCCCCTCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTc                     <  2:190478/143‑1 (MQ=255)                                                                                                                             cggcgccGCCATGTCGGCGCAGGATCACGTTTTGCTCCGCCAGCGCAGTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGCCGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGataata              <  2:629424/138‑1 (MQ=255)                                                                                                                                cACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCg           >  1:628948/1‑143 (MQ=255)                                                                                                                                         gatgGCGCAGGATCAGGTTTTGCACCGCCAGCTCATTTAGGT‑CGCGACGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACAAGAACCATAATACCGATGTGCCgg  >  2:582766/1‑142 (MQ=255)                                                                                                                                               |                                                                                                                                          TCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGT‑CGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGT  >  NC_000913/3560314‑3560591

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑