Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	533,863	(T)7→6	intergenic (+37/‑53)	allR → / → gcl	DNA‑binding transcriptional repressor AllR/glyoxylate carboligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	533,857	0	T	.	100.0%	191.3 / NA	46	intergenic (+31/‑59)	allR/gcl	DNA‑binding transcriptional repressor AllR/glyoxylate carboligase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (24/22);  total (24/22)

CGGGCCTTCATCAAGACTGACAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGTTTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCACTACCGCCTTCGGTG  >  NC_000913/533718‑533988                                                                                                                                            |                                                                                                                                    cGGGCCTTCATCAAGACTGACAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGt                                                                                                                                     >  2:1112883/1‑140 (MQ=255)   ggCCTTCATCAAGACTGACAGAAGATCGTTTTGTTAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGttt                                                                                                                                   >  2:894478/1‑140 (MQ=255)   ggCCTTCATCAAGACTGACAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGttt                                                                                                                                   >  1:1063152/1‑140 (MQ=255)    gCCTTCATCAAGACTGACAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGtttt                                                                                                                                  >  1:129581/1‑140 (MQ=255)        tcatcaAGACTGACAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGttttttga                                                                                                                              >  2:576161/1‑138 (MQ=255)                aCTGACAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGttttttgaca                                                                                                                            >  2:122529/1‑130 (MQ=255)                aCTGACAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGttttttgaca                                                                                                                            <  1:122529/134‑5 (MQ=255)                    aCAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGaaa                                                                                                                 >  1:490191/1‑140 (MQ=255)                                tttGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAAtt                                                                                                     >  1:827220/1‑140 (MQ=255)                                    tcagtcagGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTcc                                                                                                 <  1:1110443/140‑1 (MQ=255)                                     cagtcagGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCa                                                                                                <  2:926553/140‑1 (MQ=255)                                     cagtcagGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCa                                                                                                <  2:1063152/140‑1 (MQ=255)                                     cagtcagGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCa                                                                                                <  1:662033/140‑1 (MQ=255)                                     cagtcagGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCa                                                                                                <  1:1112883/140‑1 (MQ=255)                                       gtcagGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAAtt                                                                                                     >  2:1096295/1‑133 (MQ=255)                                       gtcagGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAAtt                                                                                                     <  1:1096295/133‑1 (MQ=255)                                        tcagGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCaata                                                                                             >  1:178593/1‑140 (MQ=255)                                            ggTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCaataaata                                                                                         >  1:1037824/1‑140 (MQ=255)                                                aGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAgg                                                                                     >  2:27278/1‑140 (MQ=255)                                                 gCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGt                                                                                    <  1:894478/140‑1 (MQ=255)                                                     gTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCaa                                                                                               <  2:427772/125‑1 (MQ=255)                                                     gTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCaa                                                                                               >  1:427772/1‑125 (MQ=255)                                                      tCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGGATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGaa                                                                               >  2:1010262/1‑140 (MQ=255)                                                      tCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCa                                                                                                >  1:911794/1‑123 (MQ=255)                                                      tCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCa                                                                                                <  2:911794/123‑1 (MQ=255)                                                      tCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGaa                                                                               >  2:548123/1‑140 (MQ=255)                                                          agaCACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATaaa                                                                           >  1:629317/1‑140 (MQ=255)                                                            acacCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAAt                                                                         >  2:671333/1‑140 (MQ=255)                                                                cgcccgcGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCa                                                                     <  2:178593/140‑1 (MQ=255)                                                                            cAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGcc                                                         >  2:388282/1‑140 (MQ=255)                                                                               cACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGtt                                                      >  2:615972/1‑140 (MQ=255)                                                                                 cGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATgag                                                             >  1:683409/1‑131 (MQ=255)                                                                                 cGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATgag                                                             <  2:683409/131‑1 (MQ=255)                                                                                 cGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGa                                                    <  1:1010262/140‑1 (MQ=255)                                                                                   gCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGAcg                                                  <  1:112868/140‑1 (MQ=255)                                                                                       tGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGc                                              <  2:1101566/140‑1 (MQ=255)                                                                                       tGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGc                                              <  1:615972/140‑1 (MQ=255)                                                                                       tGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGc                                              <  1:521951/140‑1 (MQ=255)                                                                                       tGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGc                                              <  2:827220/140‑1 (MQ=255)                                                                                        gggACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCa                                             <  2:290838/140‑1 (MQ=255)                                                                                          gACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAat                                           <  1:731130/140‑1 (MQ=255)                                                                                              gAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAatgtat                                       >  1:1061981/1‑140 (MQ=255)                                                                                                       tCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGgag                              >  1:271359/1‑140 (MQ=255)                                                                                                              tgtctgtcGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAaagaag                       <  1:388282/140‑1 (MQ=255)                                                                                                                  tgtcGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTAt                   >  2:1030587/1‑140 (MQ=255)                                                                                                                  tgtcGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTAt                   >  1:178371/1‑140 (MQ=255)                                                                                                                    tcGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCa                 >  1:319816/1‑140 (MQ=255)                                                                                                                     cGCATCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCAc                >  2:219407/1‑140 (MQ=255)                                                                                                                        aTCCCGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCACTAc             <  1:538121/140‑1 (MQ=255)                                                                                                                           ccGCTCTGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCACTACCGc          >  1:253228/1‑140 (MQ=255)                                                                                                                               tctGCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCACTACCGCCTTc      <  1:12353/140‑1 (MQ=255)                                                                                                                                  gCGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCACTACCGCCTTCGgt   >  2:437795/1‑140 (MQ=255)                                                                                                                                   cGGAGCGGG‑TTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCACTACCGCCTTCGgtg  >  1:933152/1‑140 (MQ=255)                                                                                                                                            |                                                                                                                                    CGGGCCTTCATCAAGACTGACAGAAGATCGTTTTGTCAGTCAGGGTGAGCTGGTCAGAGACACCGCCCGCGATATCAGCACGGCGTTGGGACTGAAAGCACATCCATAATGTCTGTCGCATCCCGCTCTGCGGAGCGGGTTTTTTTGACAAAATTTGAAAGTTGGAAAAATTTTCCAATAAATAGAGGTAGGAATAAAATGGCAAAAATGAGAGCCGTTGACGCGGCAATGTATGTGCTGGAGAAAGAAGGTATCACTACCGCCTTCGGTG  >  NC_000913/533718‑533988

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑