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%	136.7 / NA	43	pseudogene (151/758 nt)	glpR	DNA‑binding transcriptional repressor GlpR
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (20/23);  total (20/23)

GATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGA  >  NC_000913/3560316‑3560588                                                                                                                                             |                                                                                                                                      gATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGGTAACCGAACTGGAAGGCAGCGCCGCACCGCCACGATCGcgca                                                                                                                                     >  1:601514/1‑140 (MQ=255)    aaaCAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCGGCGCCGCACCGCCATGCTGGCGCAGGa                                                                                                                                  >  1:147307/1‑143 (MQ=255)      aCAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTGCGGTCTGGGTGGCCTTGCGATCGGGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATc                                                                                                                                <  1:531926/143‑1 (MQ=255)        aGCGTCGAGCCATTGGGGATTTGCTCCGCCACCTTGCGGGCTATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAg                                                                                                                              <  1:461696/143‑1 (MQ=255)           gTCGAGCCATTGGGGATGTGCGCCGCCACCTTGCGGGCGATGCGCTCTTTTTCTCCGGTCTGGGTGGCCGTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGtt                                                                                                                           <  1:160680/143‑1 (MQ=255)            tCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGCAGGCAGCGCCGCACCGCCTTACGGCCGCAGGATCAGGttt                                                                                                                          >  2:896945/1‑143 (MQ=255)            tCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGCGCCCCCGCGTGTTCCCCGAACTGGAAGGCAGCGCCGCCCCGCCATGCTGGCGCAGGATCAGGttt                                                                                                                          <  1:683889/143‑1 (MQ=255)               aGCCTTTGGGGATTTGCCCCGCCACTGTGCGGGCGATGCGCTCTTTGTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGc                                                                                                                       <  2:299175/143‑1 (MQ=255)                gCCATTGGAGATTTGCTCCGCCACGTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCTTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCt                                                                                                                      <  1:180996/143‑1 (MQ=255)                       tggttttGCTCGGCCACTTTGCGGGCGATGCGCGCTTTTACTTCGGTCTGGGTGGCCTTGCGAGCGTGCCAGGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAg                                                                                                               <  2:16618/139‑1 (MQ=255)                        ggAGTTGCCCCGCCACTCTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGc                                                                                                              <  1:548370/143‑1 (MQ=255)                             tGCTCCGCCACTTTGCGGGCGATGCGCCCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCAtt                                                                                                         <  1:308041/143‑1 (MQ=255)                               cTCCGGCACTTTGCGGGCGATGCGCGCTTTTTCTTCGGTCTGGGTGGCCGTGCGATCGTGCCACGGCGTGGTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGCTTTTGCTCCGCCAGCTCATTGa                                                                                                       <  2:393373/143‑1 (MQ=255)                               cTCCCCCACTTTGCGGGCGATGCGCTCGTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGa                                                                                                       <  1:124329/143‑1 (MQ=255)                                tCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAg                                                                                                      >  1:569872/1‑143 (MQ=255)                                    ccACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGCGGTcg                                                                                                  >  1:637809/1‑143 (MQ=255)                                           gCGGGGGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGaa                                                                                           <  2:259453/143‑1 (MQ=255)                                             gggCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGCGGTCGCGGCGAATa                                                                                         >  1:926657/1‑143 (MQ=255)                                             gggCGATGCGCTCTGTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATa                                                                                         <  1:89258/143‑1 (MQ=255)                                               gCGATGCGCTCTTTTTCTTCGGTCTGGGTGGGCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGt                                                                                       <  1:546238/143‑1 (MQ=255)                                                   tGCGCTCTTTTTTTTTTTTTTTTGTGGCCTTGCGATCGTGCCACGGCGTTTTTTCCGATCTGGATGGCAGCGCCGCACCGCCATGATGGCGCAGGATCTGTTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGCATGGTCTGc                                                                                   >  2:781643/1‑143 (MQ=255)                                                    gcgcTCCTTTTCTTCGGTCTGGGTGCCCTTTCGATCGCGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCATCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCg                                                                                  <  1:183136/143‑1 (MQ=255)                                                         ctTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGGACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCAACACCTCATTCAAGACGCGGCGAGTAGTCAGAGGACTg                                                                             >  2:297055/1‑143 (MQ=255)                                                               cttcGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCCGCGGGCCGACGgag                                                                       >  2:807866/1‑143 (MQ=255)                                                                ttcGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGgaga                                                                      >  1:251997/1‑143 (MQ=255)                                                                 tcGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACGGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGaa                                                                     <  1:468880/143‑1 (MQ=255)                                                                          gTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCCTGATGGCGCAGGACCAGGTTTTGCTTCGCCAGCTAATTGAGGTAGCGGAGAATAGTCTGCGGGCTGACGGAGAAATGCACTAc                                                            >  1:365594/1‑143 (MQ=255)                                                                                     aTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCgg                                                 >  1:483698/1‑143 (MQ=255)                                                                                     aTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCgg                                                 >  1:40524/1‑143 (MQ=255)                                                                                            cACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGAc                                          <  1:569117/143‑1 (MQ=255)                                                                                                       aaCCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgct                               >  1:655248/1‑143 (MQ=255)                                                                                                       aaCCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgct                               <  1:790164/143‑1 (MQ=255)                                                                                                        aCCGAACTGGAAGGCAGCGCCGCAACGCCATGATGGCGCAGGATCAGGTTTTGCTCGGCGAGCTCATTGAGGTGGCGGCGAATAGTCTGCGGGCTGACGGAGCAATGCTCTACCAGCCCTTCAGTACTGACACAAccatcatg                              >  2:502731/1‑137 (MQ=255)                                                                                                         ccGAACTGGGAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGt                             <  1:215976/143‑1 (MQ=255)                                                                                                             aCTGGAAGGCAGCGCCGACCCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTaa                         <  1:658083/143‑1 (MQ=255)                                                                                                                ggAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCa                      >  1:369890/1‑143 (MQ=255)                                                                                                                 gAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCCGCTCATCGAGGTCGCGGCGCATAGTCTGCGCGCTGACGGACACATAGTCTACCAGCCCTTCGATACTGACATACCCCTCCCGCTCAACCAg                     >  2:447360/1‑143 (MQ=255)                                                                                                                     gCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCg                 >  2:730588/1‑143 (MQ=255)                                                                                                                       aGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTTCTGACACGACCCTGCTGTTTTACCAGTTCggt               >  1:71484/1‑141 (MQ=255)                                                                                                                                ccGCCATGTTGGCGCAGGGTCAGGTTTTGCTCCGCGCGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGATATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGtt      <  2:882810/143‑1 (MQ=255)                                                                                                                                ccGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACTGTCCCCTGCTGTTTAACCAGTTCGATAATACCGtt      <  2:538723/143‑1 (MQ=255)                                                                                                                                  gCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACGAGCGCTTCGGTGCTGACATAACGCTGCTGTTTCACCAGTTCGATATGACCGTtgt    >  2:195833/1‑143 (MQ=255)                                                                                                                                    cATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTGACCCGTGCGCTCATACCGTTGTGa  >  2:225429/1‑143 (MQ=255)                                                                                                                                    cATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGa  <  1:896945/143‑1 (MQ=255)                                                                                                                                             |                                                                                                                                      GATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGA  >  NC_000913/3560316‑3560588

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑