Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,560,455	+G	intergenic (‑2/+1)	glpR ← / ← glpR	pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon

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%	120.4 / NA	38	intergenic (‑2/+1)	glpR/glpR	pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (18/20);  total (18/20)

ATCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGT  >  NC_000913/3560313‑3560583                                                                                                                                                |                                                                                                                                 atCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGACGGCAGCGCCGCACCGCCATGATGGc                                                                                                                                   >  1:188980/1‑143 (MQ=255)    gATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGcgca                                                                                                                                >  1:85463/1‑140 (MQ=255)       aaaCAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGa                                                                                                                             <  1:507514/143‑1 (MQ=255)            gCGTCGAGCCATTGGGTATTTGCTCCGCCACTTTGCGGGCTATGCGCTCTTTTTTTTCGGTATGTGTGGCCTTGCGATCGTGCGACGGGGTGGTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAgg                                                                                                                        <  1:378498/143‑1 (MQ=255)               tCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTGGGGATCGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGttt                                                                                                                     <  1:625881/143‑1 (MQ=255)                 gAGCCGTTGGGGTGTTGCTCCGCCGCGTGGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTGGCGAGCGTGCCCCGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTg                                                                                                                   <  2:342486/143‑1 (MQ=255)                  aGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGc                                                                                                                  >  1:113291/1‑143 (MQ=255)                  aGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTGGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGc                                                                                                                  >  1:412530/1‑143 (MQ=255)                  aGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGAGGCGCTGTGTTTATTCGGTCTGGGTGGCCTTGCGATGGGGACACGGCGTGGGAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCGCGACCAGGTTTTgg                                                                                                                  >  2:501964/1‑142 (MQ=255)                    ccATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGTGCTGCACCGCCATGATGGCGCAGGATAAGGTTTTGCTc                                                                                                                >  1:28849/1‑143 (MQ=255)                       ttGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCTACGGCGTGTGAACCGAACTGGCGGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTACgg                                                                                                             >  1:10901/1‑142 (MQ=255)                         ggggGTGTGCTCGGCCGCTTGGCGGGCGATGGGCGCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCa                                                                                                           <  2:618112/143‑1 (MQ=255)                               ttGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTCACCGAACTGGAAGGCAGCCCCGCACCGCCATGATGGCGCACACACAGCTTGTGCTCCGCCAGCTGAt                                                                                                     >  1:153090/1‑143 (MQ=255)                                 gCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACGGGAAGGCAGCGCCGCACCGCCCTGATGGCGCAGGATCAGGTTTGGCTCCGCCAGCTCATTg                                                                                                   >  2:716662/1‑143 (MQ=255)                                   tCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAg                                                                                                 >  2:712755/1‑143 (MQ=255)                                    ccGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAgg                                                                                                >  1:691728/1‑143 (MQ=255)                                    ccGCCACTTTGCGGGCGATGCGCTCTTCTACTACGGCCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAgg                                                                                                <  1:230158/143‑1 (MQ=255)                                       ccACTTTGCGGGCGATGCGCTCTTTCTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGAAATGCAATTATAGCTTCTTGGCAGCGTCGCACCACCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTcg                                                                                             <  1:628549/143‑1 (MQ=255)                                         acgtcgCGGGCGATGCGCTCGTTTTCTTCGGTGTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTcgcg                                                                                           <  1:833705/138‑1 (MQ=255)                                           tttGCGGGCGGTGCGCTCTTCTTCTTCGGTCTTGTCGTCCTTGCGGTCGGGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCgcggc                                                                                         <  2:484501/143‑1 (MQ=255)                                           tttGCGGGCGCTGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGACATGATGGCGCAGGATCAAGTTTTGCTCCGCCAGCTCATTGAGGTCgcggc                                                                                         <  2:448763/143‑1 (MQ=255)                                             tGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCGTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGa                                                                                       <  2:459038/143‑1 (MQ=255)                                              ccGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGaa                                                                                      <  2:540644/142‑1 (MQ=255)                                                          ctctTTTTCTTCGCTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCATCGCTGCGCCTCCAATATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGc                                                                          <  1:768309/143‑1 (MQ=255)                                                                   gtcGGTCTGGGTGGCCTTGCGAGGGCGCCGCGGCGTGTTGCCCGAACTGGAAGGCAGCGCCGCGCCGCCATGCTGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGATTAGTCTGCGGGCTGACGgaga                                                                 <  2:752361/142‑1 (MQ=255)                                                                        tcggggTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGc                                                            <  1:435365/140‑1 (MQ=255)                                                                                       gATCGTGCCACGGGGTGTTAACCGAACGGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCg                                             <  1:749018/143‑1 (MQ=255)                                                                                       gATCGTGCCACGGCGTGTTAACCGAACTGGACGGCAGCGCCGCACCGCCATGATGGCGCAGGACCAGGTTTTGCTCCGCCAGCTCATTGAGGCCCCGGCGACTAGTCTGCGGGCTGACGGAGCAACGCCCTACACGctctgct                                             >  2:372874/1‑140 (MQ=255)                                                                                          cGTGCGACGGTGTGGTGTGCGGACTGGAAGGCAGCGTGGCACCGCCATGTTGGCGCAGGATCAGGTTTTGCTGCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGTCTGACGGAGAAATGCTCTACCAGCTCTTCGGTa                                          <  2:50582/143‑1 (MQ=255)                                                                                                    cGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGGCGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAGTGCTCTACCAGCTCTTCGGTACTGACCTAAc                                >  1:418902/1‑143 (MQ=255)                                                                                                     gtggTACCCGAACGGGAAGGCAGCGCCGCCGCGCCATGACGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAAcc                               <  1:364864/143‑1 (MQ=255)                                                                                                          aaCCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgct                          <  1:687323/143‑1 (MQ=255)                                                                                                            ccGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCCCTACCAGCTCTTCGGTACTGACATAACCCTACTGt                        >  2:328270/1‑143 (MQ=255)                                                                                                                aCTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTaa                    >  1:574393/1‑143 (MQ=255)                                                                                                                 cTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAAc                   <  1:792145/143‑1 (MQ=255)                                                                                                                     aaGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGCGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCCGCTGTCAAAACAGt               >  2:411933/1‑143 (MQ=255)                                                                                                                          aGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCCGCTCTTCGGTCCTGACATAACCCCGCTGATTCACCAGCTCGat          >  2:672066/1‑143 (MQ=255)                                                                                                                                gcACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACTCTGTGGTTCAACCACTTCGatactccc    >  1:576148/1‑138 (MQ=255)                                                                                                                                gcACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCAGTGGAACCAGTTCGATAATAcc    >  2:784772/1‑143 (MQ=255)                                                                                                                                  aCCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATCACCCGGCTGTTTAACCAGTTCGATAATACCGt  >  1:654235/1‑143 (MQ=255)                                                                                                                                                |                                                                                                                                 ATCGATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGT  >  NC_000913/3560313‑3560583

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: ‑