Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,619,431	Δ1 bp	coding (312/435 nt)	marR →	DNA‑binding transcriptional repressor MarR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,619,431	0	C	.	100.0%	148.3 / NA	35	coding (312/435 nt)	marR	DNA‑binding transcriptional repressor MarR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (15/20);  total (15/20)

ACTGAAAAAGGTATTGTCGGTCGACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGGCGCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTAAACAAAAAA  >  NC_000913/1619296‑1619562                                                                                                                                        |                                                                                                                                    aCTGAAAAAGGTATTGTCGGTCGACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCggcgg‑gcggc                                                                                                                                <  2:205608/140‑1 (MQ=255)  cTGAAAAAGGTATTGTCGGTCGACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCa                                                                                                                               <  1:783698/140‑1 (MQ=255)      aaaaGGTATTGTCGGTCGACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAatat                                                                                                                           <  1:241502/140‑1 (MQ=255)      aaaaGGTATTGTCGGTCGACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAatat                                                                                                                           <  2:903550/140‑1 (MQ=255)      aaaaGGTATTGTCGGTCGACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAatat                                                                                                                           <  2:533957/140‑1 (MQ=255)           gTATTGTCGGTCGACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGaa                                                                                                                      <  2:396999/140‑1 (MQ=255)                gtcggtcgACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATg                                                                                                                 <  1:375816/140‑1 (MQ=255)                gtcggtcgACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATg                                                                                                                 <  2:532388/140‑1 (MQ=255)                gtcggtcgACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATg                                                                                                                 <  2:159346/140‑1 (MQ=255)                  cggtcgACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGcc                                                                                                               <  1:352684/140‑1 (MQ=255)                    gtcgACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCAt                                                                                                             >  2:578166/1‑140 (MQ=255)                              gAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTg                                                                                                   >  2:943624/1‑140 (MQ=255)                                 cACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGTGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGcc                                                                                                <  2:662149/140‑1 (MQ=255)                                 cACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGcc                                                                                                <  2:831018/140‑1 (MQ=255)                                   cTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAg                                                                                              >  1:83739/1‑140 (MQ=255)                                    tGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAgg                                                                                             >  2:596221/1‑140 (MQ=255)                                      aCCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGAc                                                                                           <  2:83739/140‑1 (MQ=255)                                      aCCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGAc                                                                                           <  2:359607/140‑1 (MQ=255)                                        ccGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCt                                                                                         <  1:596221/140‑1 (MQ=255)                                           tATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCa                                                                                      >  2:294547/1‑140 (MQ=255)                                                            tCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACaaaaa                                                                     >  1:1115834/1‑140 (MQ=255)                                                            tCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACaaaaa                                                                     >  1:500670/1‑140 (MQ=255)                                                                tAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCt                                                                 <  1:578166/140‑1 (MQ=255)                                                                tAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCt                                                                 >  2:1103270/1‑140 (MQ=255)                                                                        gggTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGAcggcgg                                                         >  2:712592/1‑140 (MQ=255)                                                                          gTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACa                                                                         >  1:571498/1‑122 (MQ=255)                                                                          gTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACa                                                                         <  2:571498/122‑1 (MQ=255)                                                                          gTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGAc                                                       >  1:290187/1‑140 (MQ=255)                                                                               aaGGTTGCGGAACCCGAATGACAAGCGCGGCGTACTGGAAAAACTTACCACCGGCGG‑AAAGCCATATGTGAACAATGCCCACAATAAGGTGGCCAGGCACTACACCAAAAAGTAACAAAAAACCTGAAAGCGGaacggat                                                  >  2:1132139/1‑134 (MQ=255)                                                                                 ggTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTgg                                                <  2:1024701/140‑1 (MQ=255)                                                                                             cGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGt                                    <  1:53396/140‑1 (MQ=255)                                                                                                          cggcgTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGaa                       >  2:174863/1‑140 (MQ=255)                                                                                                            gcgTACTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAg                     >  1:626041/1‑140 (MQ=255)                                                                                                                 cTGGTAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTg                >  1:802151/1‑140 (MQ=255)                                                                                                                     tAAAACTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGt            <  1:943624/140‑1 (MQ=255)                                                                                                                       aaaCTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAAAAAAAAACCTGACGGCGGGCGAAGTGGCAACACTTTAGTATTTTCTTAAAAAAATCCTACCGTaa          >  2:859108/1‑140 (MQ=255)                                                                                                                        aaCTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTaaa         <  1:66670/140‑1 (MQ=255)                                                                                                                         aCTTACCACCGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTAAAc        >  1:470376/1‑140 (MQ=255)                                                                                                                               caccGGCGG‑GCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTAAACaaaaaa  <  1:294547/140‑1 (MQ=255)                                                                                                                                        |                                                                                                                                    ACTGAAAAAGGTATTGTCGGTCGACCTGGGAGCACTGACCCGTATGCTGGATCGCCTGGTCTGTAAAGGCTGGGTGGAAAGGTTGCCGAACCCGAATGACAAGCGCGGCGTACTGGTAAAACTTACCACCGGCGGCGCGGCAATATGTGAACAATGCCATCAATTAGTTGGCCAGGACCTGCACCAAGAATTAACAAAAAACCTGACGGCGGACGAAGTGGCAACACTTGAGTATTTGCTTAAGAAAGTCCTGCCGTAAACAAAAAA  >  NC_000913/1619296‑1619562

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑