Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,560,455	+G	intergenic (+589/+167)	rtcR → / ← glpG	DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,560,455	1	.	G	100.0%	71.8 / NA	22	intergenic (+589/+167)	rtcR/glpG	DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (11/11);  total (11/11)

TGTTGGTGACAATGCGCAAATTGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGC‑TCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCATTGAGCGAATCAACAAAAGCCATCGCTAAACCCACGGCTA  >  NC_000913/3560243‑3560680                                                                                                                                                                                                                       |                                                                                                                                                                                                                                  tgttgtTGACAAGGCGAAAATTGCTGTGATTGAGCATGGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATACCGATAACCGGCGTCGAGCCATTGGGGTTTTGC‑TCCGCCCCTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTGGCGATCGTGCCACGGCGTGTTAACCTAACTGGAAGGCAGTGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTc                                                                                                                                                                                               <  1:220766/250‑1 (MQ=255)          cAATGCGCAAATTGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGC‑TCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAAt                                                                                                                                                                                      >  1:254915/1‑250 (MQ=255)                            gATTGAGCCGTGCGTGCGATCCCGCTTCCGGCGCGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGC‑TCCGCCACTTTGCGGGCGATGAGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGTTCGTGCCACGGCGCGTTCACCGAACTGGAAGGCCGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCCCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACgg                                                                                                                                                                     >  2:43805/1‑249 (MQ=255)                                     gtgcgtgcGCTCCCGCTCCCGGCGTGGTGCCGATATCGATAACCAGGGTCGAGCCATTGGGGTTTTGC‑TCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGTACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGctct                                                                                                                                                          <  1:140120/251‑1 (MQ=255)                                        cgtgcgCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGC‑TCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTAcc                                                                                                                                                       >  1:152210/1‑251 (MQ=255)                                                       ccGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGC‑TCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTg                                                                                                                                        >  1:85883/1‑251 (MQ=255)                                                                                  cccgtagcgcaattggggttcttcgccGCCTCTTTGCGGCCGTTGCGCTTTTTTTCTTCGGGCTGGTTGGCCTGGCGCGCGTGCCACGGCGTGTTAACCAACCTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGTTCCGCCAGCTCATTGAGTGCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTc                                                                                                              <  1:127731/226‑1 (MQ=255)                                                                                           ccatGGGGGTTTGCCTCCGCCTCGTTGCGGGCGATGCGCTCTTTTTCTTCGGGCGGGGGGGCCGGGCGATCGTGCCACGGCGTGTTAACCGATCTGGAAGGCAGCGCGGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATAcc                                                                                                     <  2:63760/248‑1 (MQ=255)                                                                                            aTTGGGGATTTGC‑TCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAAACAGTTCGATAATACCGt                                                                                                   >  2:146182/1‑251 (MQ=255)                                                                                              ggggtttttGC‑TCCGCCACTTTGCGGGCGATGCGCTTTTTTTTTTGTGTCTGGGGGGCCTTGCGATCGTGCCCCGGCGTGTTAACCAAACTGGAAGGCAGCTCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTtg                                                                                                 <  2:192371/245‑1 (MQ=255)                                                                                                 ggttttGC‑TCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTACCCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGa                                                                                              <  1:228733/248‑1 (MQ=255)                                                                                                   aTTTGC‑CCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACg                                                                                            >  1:71207/1‑251 (MQ=255)                                                                                                          cccGCCATTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTACGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTgtgt                                                                                      <  1:102450/250‑1 (MQ=255)                                                                                                             gCCACTTTGCGGGCGATGCGTTTTTTTTCTTCGGTGGGGGTGGCCTTGCGACCGTGCCACGGCGTGTTACCAGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGtgtttg                                                                                   <  2:109356/251‑1 (MQ=255)                                                                                                                                           tcGGTCTGGGTGGCCTTGCGCTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTAttttc                                                     >  2:27322/1‑251 (MQ=255)                                                                                                                                            cGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCCTTTATAAATCCCTGGAATTAttttcg                                                    >  2:82529/1‑251 (MQ=255)                                                                                                                                            cGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTAttttc                                                     <  1:34653/250‑1 (MQ=255)                                                                                                                                             ggacTGGGTGGCCTTGAGATCGTGCCACGGCGTGTTAACCGAACTGGCAGGGAGCGCAGAACCGCCATGATGCCGCAGGACCAGGTTTTGCTCCGCCACCTCTCTGAGGTCGCGGAGAATAATCTGCCGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGGACTGTCATAACCCTGCTGTTTAAACAGTTCGATAATACAGTTGTGTCGTTGTGTTTGCTTCATTTATAAATCCATGGAATTAttttcgt                                                   >  2:148499/4‑251 (MQ=255)                                                                                                                                                        ccTTGCGAGCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCCCCGCACCTCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTGCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCAtt                                        <  1:128469/251‑1 (MQ=255)                                                                                                                                                                    gCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCATTGAGCGAATcaa                             <  1:36110/250‑1 (MQ=255)                                                                                                                                                                            gtgtTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATACATCCCTGGAATTATTTTCGTTTTCGCGCATTGCGCGAATCAACAAAAGcc                     >  2:107806/1‑250 (MQ=255)                                                                                                                                                                                               gCAGCGCCGCCCCGCCATGATGGCGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACAGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCATTGAGCGAATCAACAAAAGCCATCGCTAAACCCACGGCTa  >  2:262259/1‑250 (MQ=255)                                                                                                                                                                                                                       |                                                                                                                                                                                                                                  TGTTGGTGACAATGCGCAAATTGCTGTGATTGAGCAGTGCGTGCGCTACCGCTTCCGGCGTGGTGCCGATATCGATAAACAGCGTCGAGCCATTGGGGATTTGC‑TCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATGATGGC‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGTTGTGACGTTGTGTTTGTTTCATTTATAAATCCCTGGAATTATTTTCGTTTTCGCGCATTGAGCGAATCAACAAAAGCCATCGCTAAACCCACGGCTA  >  NC_000913/3560243‑3560680

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: ‑