Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,508,746	G→A	intergenic (+4/+88)	rlhA → / ← yncJ	23S rRNA 5‑hydroxycytidine C2501 synthase/protein YncJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,508,746	0	G	A	100.0%	115.6 / NA	32	intergenic (+4/+88)	rlhA/yncJ	23S rRNA 5‑hydroxycytidine C2501 synthase/protein YncJ
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (17/15);  total (17/15)

GTTACCGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACGCCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGCGTTACGCCGCATCCG  >  NC_000913/1508670‑1508821                                                                             |                                                                            gTTACCGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAg                                                                         >  2:286243/1‑81 (MQ=255)  ttACCGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGt                                                                        >  2:286244/1‑81 (MQ=255)  ttACCGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGt                                                                        <  1:286199/81‑1 (MQ=255)     ccGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGtttt                                                                     >  1:286226/1‑81 (MQ=255)     ccGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGttt                                                                      <  1:286201/80‑1 (MQ=255)     ccGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGttt                                                                      <  2:286200/80‑1 (MQ=255)      cGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTc                                                                    <  2:286202/81‑1 (MQ=255)       gggAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCt                                                                   >  1:286231/1‑81 (MQ=255)        ggAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTg                                                                  >  1:286242/1‑81 (MQ=255)         gAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTgg                                                                 >  2:286230/1‑81 (MQ=255)           aGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGtt                                                               <  2:286203/81‑1 (MQ=255)               tAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTc                                                           <  1:286204/81‑1 (MQ=255)                aGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTca                                                          >  1:286228/1‑81 (MQ=255)                aGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTca                                                          >  1:286236/1‑81 (MQ=255)                 gTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTcac                                                         <  1:286205/81‑1 (MQ=255)                  tGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTcaca                                                        <  2:286206/81‑1 (MQ=255)                      aTCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACt                                                     >  1:286234/1‑80 (MQ=255)                         cGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTAt                                                  <  1:286207/80‑1 (MQ=255)                          gTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTg                                                <  1:286208/81‑1 (MQ=255)                                    aTGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCAt                                       >  2:286237/1‑80 (MQ=255)                                            ctgAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATtg                                <  1:286209/79‑1 (MQ=255)                                            ctgAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATtg                                <  2:286210/79‑1 (MQ=255)                                              gAAAACATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATtgcctg                            >  1:286256/1‑81 (MQ=255)                                               aaaaCATTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATtgcctgc                           <  2:286211/81‑1 (MQ=255)                                                    aTTGCCGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCggg                       >  1:286240/1‑80 (MQ=255)                                                         cGAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGc                 <  1:286212/81‑1 (MQ=255)                                                          gAAGCGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGCg                <  1:286213/81‑1 (MQ=255)                                                              cGAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGCGTTAc            >  2:286235/1‑81 (MQ=255)                                                               gAAAAGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGCGTTAcg           >  1:286257/1‑81 (MQ=255)                                                                 aaaGGGTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGCGTTAcgcc         >  1:286249/1‑81 (MQ=255)                                                                     ggTAAAACACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGCGTTACGCCGCAt     >  1:286239/1‑81 (MQ=255)                                                                        aaaaCACCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGCGTTACGCCGCATCCg  >  2:286252/1‑81 (MQ=255)                                                                             |                                                                            GTTACCGGGAAGCGTAGTGGCATCCGTAAGTCCGGATGAGCTGCTGAAAACATTGCCGAAGCGAAAAGGGTAAAACGCCAGTTTTCTGGTTACTCACAACTTATTGAATCTGCATGATATTGCCTGCCGGGTAAGGCGTTACGCCGCATCCG  >  NC_000913/1508670‑1508821

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑