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%	50.4 / NA	16	G8G (GGC→GGT)	rtcR	DNA‑binding transcriptional activator RtcR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (11/5);  total (11/5)

CGGGGCATTTTCAGTGGTCAGTAATTCGTAATTCATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGCTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGTGGGATTTCG  >  NC_000913/3558044‑3558523                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                         cGGGGCATTTTCAGTGGTCAGTAATTCGTAATTCATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGtggcttttggtttt                                                                                                                                                                                                                                       <  1:1548/251‑1 (MQ=255)           tCAGTGGTCAGTAATTCGTAATTCATTTTGGTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCg                                                                                                                                                                                                                             >  1:175539/1‑251 (MQ=255)                ggTCAGTAATTCGTAATTCATTTTTTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTg                                                                                                                                                                                                                        >  1:50176/1‑251 (MQ=255)                    aGTAATTCGTAATTCATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGAtt                                                                                                                                                                                                                    >  2:167537/1‑251 (MQ=255)                      taattcgtaattcATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTAt                                                                                                                                                                                                                  >  1:222144/1‑251 (MQ=255)                                 tcATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGGTTTTGGTGTTGTCGGTACCGTACTGGATTATGCCGGGcgcg                                                                                                                                                                                                        <  1:171200/250‑1 (MQ=255)                                                                         aTTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGttt                                                                                                                                                                >  1:64967/1‑250 (MQ=255)                                                                                     gtGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGa                                                                                                                                                    >  1:39795/1‑250 (MQ=255)                                                                                                                                                      aCGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGGCTTGTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCTGTGGGCATCGATCGACTGGAATTGTGGCACGACGCCCGCTCGCTCGCGCTATTGGAAACGc                                                                                   <  2:175289/250‑1 (MQ=255)                                                                                                                                                              aaCCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAAcgcg                                                                          >  1:96436/1‑251 (MQ=255)                                                                                                                                                                                                    aaaTATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGc                                    >  2:52325/1‑251 (MQ=255)                                                                                                                                                                                                          cGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGTTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTga                               <  2:31160/250‑1 (MQ=255)                                                                                                                                                                                                                        atatCTAAGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGCCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATaa                <  1:204867/251‑1 (MQ=255)                                                                                                                                                                                                                              aaGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGcgctcgct                                                                                              <  1:199469/167‑1 (MQ=255)                                                                                                                                                                                                                              aaGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGcgctcgct                                                                                              >  2:199469/1‑167 (MQ=255)                                                                                                                                                                                                                               aGATGCGTAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGTgg         >  2:164316/1‑251 (MQ=255)                                                                                                                                                                                                                                      tAAAACAGTGGCTTTTGGTTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGCTGAGATTGAACTGCATAACCCGTGGGATTTCg  >  2:25384/1‑251 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                         CGGGGCATTTTCAGTGGTCAGTAATTCGTAATTCATTTTGTTTTTCTCTTTTCGTTGTTTGCTGTCCTGATAATTGCAACCGTCGTGCCAGAAAATTAAATAAGCAGCTTAATTTTTTAATTCATTGTTTTAAAAAAGATTATATCTTTACGTCCGTAACCGGAGATTTCCCGCAAAGCCAATTTACCGATAATGAAATATCGTCTTTTATAAGGATATCTAAGATGCGTAAAACAGTGGCTTTTGGCTTTGTCGGTACCGTACTGGATTATGCCGGGCGCGGCAGTCAGCGCTGGTCAAAATGGCGTCCGACACTCTGTTTATGCCAGCAAGAATCGTTGGTCATCGATCGACTGGAATTGTTGCACGACGCCCGCTCGCGCTCGCTATTTGAAACGCTTAAACGCGATATCGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGTGGGATTTCG  >  NC_000913/3558044‑3558523

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑