Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,521,593	C→T	*295* (TAG→TAA)	xapR ←	transcriptional activator of xapAB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,521,593	0	C	T	100.0%	177.3 / NA	54	*295* (TAG→TAA)	xapR	transcriptional activator of xapAB
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (31/23);  total (31/23)

CACGACCCACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACCTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATGACACCTGGCCAGTTCATTTGTGCGT  >  NC_000913/2521473‑2521726                                                                                                                         |                                                                                                                                      cACGACCCACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTa                                                                                                                                     >  2:1197541/1‑123 (MQ=255)      cccACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTa                                                                                                                                     >  1:460404/1‑118 (MQ=255)      cccACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCa                                                                                                                    <  2:1181752/135‑1 (MQ=255)      cccACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCa                                                                                                                    >  1:1181752/1‑135 (MQ=255)                tAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCa                                                                                                                    >  1:612282/1‑125 (MQ=255)                tAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCa                                                                                                                    <  2:612282/125‑1 (MQ=255)                        cgcCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACtgtggctgcattga                                                                                                                      <  2:198786/115‑11 (MQ=39)                        cgcCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACtgtggctgcattga                                                                                                                      >  1:198786/1‑105 (MQ=39)                        cgcCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAAc                                                                                                          >  1:1277422/1‑127 (MQ=255)                        cgcCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAAc                                                                                                          <  2:1277422/127‑1 (MQ=255)                          cccTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTa                                                                                                                                     <  2:198593/98‑1 (MQ=255)                          cccTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTa                                                                                                                                     >  1:198593/1‑98 (MQ=255)                                     cTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCagtccaaatgcc                                                                                 >  1:1234451/1‑128 (MQ=255)                                                  tGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCGGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAatat                                                                    >  2:642214/1‑139 (MQ=255)                                                  tGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAAc                                                                                                                  <  1:326365/93‑1 (MQ=255)                                                  tGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAAc                                                                                                                  >  2:326365/1‑93 (MQ=255)                                                  tGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAatat                                                                    >  1:1176273/1‑139 (MQ=255)                                                  tGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAatat                                                                    >  2:1060459/1‑139 (MQ=255)                                                    cGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCa                                                                                                                    <  2:840620/89‑1 (MQ=255)                                                    cGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCa                                                                                                                    >  1:840620/1‑89 (MQ=255)                                                     gATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAAtatata                                                                 <  1:1060459/139‑1 (MQ=255)                                                       tttGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCt                                                                                                              <  2:1480824/92‑1 (MQ=255)                                                       tttGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCt                                                                                                              >  1:1480824/1‑92 (MQ=255)                                                          gCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAata                                                                     >  1:299451/1‑130 (MQ=255)                                                          gCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAata                                                                     <  2:299451/130‑1 (MQ=255)                                                                    cTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGTAGGGATgc                                                  <  2:1176273/139‑1 (MQ=255)                                                                                      cAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTAc                                                                                                                                    <  1:61608/39‑1 (MQ=255)                                                                                      cAGACTACTATTTCCGGCAATTCCTGTCTCCTCACTTAc                                                                                                                                    >  2:61608/1‑39 (MQ=255)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACtgtg                                                                                                                                >  1:1489489/1‑40 (MQ=38)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACtgtg                                                                                                                                <  2:1489489/40‑1 (MQ=255)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCa                                                                                                                    <  1:735338/52‑1 (MQ=255)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCa                                                                                                                    >  2:735338/1‑52 (MQ=255)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATa                                                                            >  2:280098/1‑92 (MQ=255)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATa                                                                            <  1:280098/92‑1 (MQ=255)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATgcg                                                 <  1:208156/119‑1 (MQ=255)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATgcg                                                 >  2:208156/1‑119 (MQ=255)                                                                                         actactATTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGaaaa                             >  1:1032238/1‑139 (MQ=255)                                                                                           tactaTTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATa                                                                            >  2:1125214/1‑90 (MQ=255)                                                                                           tactaTTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATa                                                                            <  1:1125214/90‑1 (MQ=255)                                                                                           tactaTTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATg                           >  2:1386520/1‑139 (MQ=255)                                                                                           tactaTTTCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATg                           >  1:31446/1‑139 (MQ=255)                                                                                                tttCCGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATGACAcc                      >  1:1243794/1‑139 (MQ=255)                                                                                                   ccGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACctgct                                                                                      >  1:488117/1‑72 (MQ=255)                                                                                                   ccGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACctgct                                                                                      <  2:488117/72‑1 (MQ=255)                                                                                                   ccGGCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATaat                                                                          <  2:941654/84‑2 (MQ=255)                                                                                                   ccGGCAATTCCTGTCTCATCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACGTGCTGTGTTTCATaaa                                                                          >  1:941654/1‑84 (MQ=255)                                                                                                     ggCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCgg                                                                                                  >  1:932980/1‑58 (MQ=255)                                                                                                     ggCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCgg                                                                                                  <  2:645553/58‑1 (MQ=255)                                                                                                     ggCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCgg                                                                                                  >  1:645553/1‑58 (MQ=255)                                                                                                     ggCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCgg                                                                                                  <  2:932980/58‑1 (MQ=255)                                                                                                     ggCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCAc                                                                                           >  2:1224351/1‑65 (MQ=255)                                                                                                     ggCAATTCCTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCAc                                                                                           <  1:1224351/65‑1 (MQ=255)                                                                                                            ccTGTCTCCTCACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATGACACCTGGCCAGTTCAt          <  1:1386520/139‑1 (MQ=255)                                                                                                                    ctcACTTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATGACACCTGGCCAGTTCATTTGTGCGt  >  2:809073/1‑139 (MQ=255)                                                                                                                         |                                                                                                                                      CACGACCCACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTATCTGCGATTTGCGAAATTGCCTGATGCGCTTCACTTAGCAGACTACTATTTCCGGCAATTCCTGTCTCCTCACCTACTGTGTCAATGCAGCCAACAGCTTAACCATCGCGGGCGTCACCTGCTGTGTTTCATAAACAATATATAAATCTGCAGGGATGCGCTGTTTGAGCGGACGGAAAATGACACCTGGCCAGTTCATTTGTGCGT  >  NC_000913/2521473‑2521726

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑