Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,558,291	C→T	G8G (GGC→GGT)	rtcR →	DNA‑binding transcriptional activator RtcR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,558,291	0	C	T	100.0%	112.8 / NA	33	G8G (GGC→GGT)	rtcR	DNA‑binding transcriptional activator RtcR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (20/13);  total (20/13)

GGGGCATTTTCAGTGGTCAGTAATTCGTAATTCATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGCTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGTGGGATTTCGAAGAGGTCTACGC  >  NC_000913/3558045‑3558536                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                      ggggCATTTTCAGTGGTCAGTAATTCGTAATTCATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTg                                                                                                                                                                                                                                                   >  1:225317/1‑251 (MQ=255)               tgTCAGTAATTCGTAATTCATTTTGTTTTTCGCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATTCGTAAAACAGTGGCTTTTGGTTTTGTCGGGACCGTACt                                                                                                                                                                                                                                      <  2:69373/249‑1 (MQ=255)                               ttcATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTAGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTAATTGTTTTAAAAAAGCTTATATCTTTACGTCCGTAACCGGAGATTTCACGCACAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGcgcg                                                                                                                                                                                                                     >  1:391833/1‑251 (MQ=255)                                                    cGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCaaaa                                                                                                                                                                                                 <  1:115631/250‑1 (MQ=255)                                                    cGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAAt                                                                                                                                                                                                <  2:225317/251‑1 (MQ=255)                                                                tCCTGATAATTGCAACCGTAGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGATGGTCAAAATGGCGTCCGacac                                                                                                                                                                                    >  2:351407/1‑251 (MQ=255)                                                                    gATAATTGCAACCGTCGTGTCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTGACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAAGGAATTATCGTCTTTTATAAGGAGATCTAAGATGCGTAAAACAGTGGCTTTTGGTGTTGTCGGTACCGGACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACActc                                                                                                                                                                                  <  2:30290/249‑1 (MQ=255)                                                                    gATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGAGTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGGACTGGATTATGCCGGGCGCGGCAGGCAGCGCTGGTCAAAATGGCGTCCGACActct                                                                                                                                                                                 <  2:147177/250‑1 (MQ=255)                                                                          tGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATg                                                                                                                                                                          >  2:112751/1‑251 (MQ=255)                                                                                                 taaTAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACAGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCAGGGCGCGGCAGTCAGCGCTGGTCAACAGGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCatcg                                                                                                                                                   >  2:116822/2‑251 (MQ=255)                                                                                                       gcagcTTAATTTTTTACTTCATTGTTTTAAAAAAGATTATCTCTTTACGTCCGTACCCGGAGATTTCCCGCAAAGCAACTTTACCGTTAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGCGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGACAGTCAGAGCTGGTCAAAATGGCGTCCGACACTCTGATTATGCCAGCAAGAATCGTTGGTCatcgatcgtc                                                                                                                                             >  2:156381/1‑249 (MQ=255)                                                                                                        cagcTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACt                                                                                                                                            >  1:214518/1‑251 (MQ=255)                                                                                                                      aaTTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCac                                                                                                                               <  2:216016/250‑1 (MQ=255)                                                                                                                      aaTTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGAAACCGGAGATTTCCCGCAAAACCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACAGTACTGGATTATGCAGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGAATGGAATTGTTGCacg                                                                                                                              >  2:43140/1‑251 (MQ=255)                                                                                                                           aTTGTTTTAACCAAGCTTATATCTTTACGTACGTAACCGGAGATTTCCCGAAACGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAACCAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGCTCGACTGGAATTGTTGCACGACGcc                                                                                                                         >  2:61408/1‑251 (MQ=255)                                                                                                                              gTTTTACAAAAGATTGTATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGTATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCcgc                                                                                                                      >  2:176248/1‑251 (MQ=255)                                                                                                                              gTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAAGGGCGTCCGACACTCAGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCcg                                                                                                                       <  2:174015/250‑1 (MQ=255)                                                                                                                                  tAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGAAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCcgctcgc                                                                                                                  >  1:330573/1‑251 (MQ=255)                                                                                                                                    aaaaaGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATTCGTAAAACAGTGGCTTTTTGTTGTTTCGGTACCGGACTGGATTATGCCGGGCGCGGCAGTCAGCGCTTGTTAAAATGGCGGCCGGCACTCTGGTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCcgctcgcgc                                                                                                                <  2:391833/251‑1 (MQ=255)                                                                                                                                                  tttACGTCAGTAACCGGAGATTTCCCACAAAGACCATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAACACAGTGGCTTTTGGTTTTGTCGGTACCGTATTGGATTATGCCGGGCGCGGCAGTCAGCGATGGTCCAAATGGCGTCCGACACGCTGTTTATGCCAGCAGGATTCGTTGGTCCTCGATCGTCTGGAATTGTTGCCCGACGCCCGCTCGCGCTCGCTATTTGAAAc                                                                                                  >  2:188779/1‑251 (MQ=255)                                                                                                                                                       gTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTa                                                                                             <  1:60222/251‑1 (MQ=255)                                                                                                                                                          cGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAAc                                                                                          >  1:191887/1‑251 (MQ=255)                                                                                                                                                          cGTAACCGGAGATTTAACGCAAAGCCAATTTACCGCTAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGCCGCCCGCTCGCGCTCGCTATTTGGAACGCTTCAAc                                                                                          >  2:201419/1‑251 (MQ=255)                                                                                                                                                           gTAACCGGTGATTTCCCGCAAATCCAATTTACCGATAATGAAATATCGTCTTTGATAAGGATATCTATGATGCGTAAAACAGTGTCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGTGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACTCTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGTAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAAcg                                                                                         <  1:144621/251‑1 (MQ=255)                                                                                                                                                           gTAACCGGAGATTTCCCGCCAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCAGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTCTTTGAAACGCTTAAAcg                                                                                         >  2:163332/1‑251 (MQ=255)                                                                                                                                                                              aaaGCCAATTTACCGATAATGAAATATCGTATTTTATAAGGATATCTACGATGCATAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCATTCAGCGCTGGACAAACTGGAGTCCGACACTCTGTTTATGCCAGCAAGAGTCGTTGGTCATCAATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCg                                                                      >  1:300783/1‑251 (MQ=255)                                                                                                                                                                                     attgaCCGATAATGAAATATCGTCTTTTATAAGGATATTTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGGCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTGGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGACAGaaa                                                               <  2:292569/247‑1 (MQ=255)                                                                                                                                                                                      tttACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCCCGACGCCcgctcgcgctc                                                                                                              >  2:252889/1‑203 (MQ=255)                                                                                                                                                                                      tttACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCcgctcgcgctc                                                                                                              <  1:252889/203‑1 (MQ=255)                                                                                                                                                                                                    aaTATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGCGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCCTCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCg                                                >  1:139139/1‑251 (MQ=255)                                                                                                                                                                                                          gTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCcgctcgcgctc                                                                                                              >  1:202954/1‑183 (MQ=255)                                                                                                                                                                                                          gTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCcgctcgcgctc                                                                                                              <  2:202954/183‑1 (MQ=255)                                                                                                                                                                                                                                aTGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGTggg                     >  2:214471/1‑250 (MQ=255)                                                                                                                                                                                                                                                  tttggttttGTCGGTACCGTACTGGATTTTGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCCGCACGACTCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGAGGGATTTCGAAGAGGTCTACgc  >  2:36155/1‑251 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                      GGGGCATTTTCAGTGGTCAGTAATTCGTAATTCATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGCTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGTGGGATTTCGAAGAGGTCTACGC  >  NC_000913/3558045‑3558536

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑