Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,098,989	A→G	H115R (CAC→CGC)	rhaR →	transcriptional activator of rhaSR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,098,989	0	A	G	100.0%	130.4 / NA	38	H115R (CAC→CGC)	rhaR	transcriptional activator of rhaSR
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (21/17);  total (21/17)

TACATTCATGCTGACGATAAACACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACACTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCGGGCAGTTGGTGATGTTGCTGAATCGCCATCGTTA  >  NC_000913/4098844‑4099136                                                                                                                                                  |                                                                                                                                                    tACATTCATGCTGACGATAAACACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGgc                                                                                                                                                >  2:278529/1‑151 (MQ=255) tACATTCATGCTGACGATAAACACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGgc                                                                                                                                                >  1:448577/1‑151 (MQ=255) tACATTCATGCTGACGATAAACACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGgc                                                                                                                                                >  1:338349/1‑151 (MQ=255)    aTTCATGCTGACGATAAACACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCGGGGCAACCACGCTGGCGCt                                                                                                                                             >  1:5435/1‑151 (MQ=255)             gACGATAAACACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGc                                                                                                                                     >  1:237215/1‑150 (MQ=255)                 aTAAACACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATggg                                                                                                                                >  2:464110/1‑151 (MQ=255)                   aaaCACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATgggg                                                                                                                               >  2:353291/1‑150 (MQ=255)                   aaaCACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATgggg                                                                                                                               >  2:472964/1‑150 (MQ=255)                      cacTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATgg                                                                                                                           <  1:278529/151‑1 (MQ=255)                       acTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGgc                                                                                                                          <  1:253167/151‑1 (MQ=255)                                         aCGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTAt                                                                                                        <  2:348724/151‑1 (MQ=255)                                            aTCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCgg                                                                                                     >  2:323177/1‑151 (MQ=255)                                                ggTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCg                                                                                                      <  1:500841/146‑1 (MQ=255)                                                ggTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTc                                                                                                   >  1:322614/1‑149 (MQ=255)                                                 ggtttGCAGAATATTATTTATTACCGGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGTCGATTCCGGGATTTAACGCCGGCGCAGGGCAACCACGGTGGCGCTTAGGTAGCATGGGGATGGCGCGGGCGCGGTAGGTTATCGGt                                                                                                    >  1:193572/3‑147 (MQ=255)                                                        aGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGc                                                                                          >  2:104808/1‑150 (MQ=255)                                                           atatTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATg                                                                                       >  2:95005/1‑150 (MQ=255)                                                               tatttattGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAag                                                                                   <  1:409270/150‑1 (MQ=255)                                                                atttattGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAagt                                                                                  >  2:532440/1‑150 (MQ=255)                                                                atttattGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAagt                                                                                  <  1:28001/150‑1 (MQ=255)                                                                  ttattGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAagtag                                                                                <  1:63651/150‑1 (MQ=255)                                                                   tattGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTc                                                                              >  1:633425/1‑151 (MQ=255)                                                                          cGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCAtgt                                                                       <  2:432389/151‑1 (MQ=255)                                                                             aGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCTATTCCGGGATTTAACGCCAGCGCAGGGCAGCCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGcc                                                                    <  2:372555/151‑1 (MQ=255)                                                                             aGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGcc                                                                    >  1:90144/1‑151 (MQ=255)                                                                             aGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGcc                                                                    >  2:200547/1‑151 (MQ=255)                                                                                gTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGtt                                                                 >  2:336180/1‑151 (MQ=255)                                                                                     aaGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTa                                                            <  1:622480/151‑1 (MQ=255)                                                                                       gCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAAc                                                          <  1:200546/151‑1 (MQ=255)                                                                                            aTCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAAt                                                     >  2:256725/1‑151 (MQ=255)                                                                                                           gggCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGtt                                      <  2:93697/151‑1 (MQ=255)                                                                                                               gATTCCGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCggg                                  >  2:285088/1‑151 (MQ=255)                                                                                                                   ccGGGATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCGGGCAGt                              <  2:448582/151‑1 (MQ=255)                                                                                                                       gATTTAACGCCAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCGGGCAGTTGGt                          <  1:409944/151‑1 (MQ=255)                                                                                                                                 cAGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCGGGCAGTTGGTGATGTTGCTg                <  1:507260/151‑1 (MQ=255)                                                                                                                                  aGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCCTGGGGATGGCGCAGGCGCGGCAGGTTATCGGTGAGCTTGAGCATGAAAGCAGTCAGCATGTGCCGTTTGCTAACGAAACGGCTGAGTTGCTGCTCGGGCAGTAGGTGATGGTGCTg                >  1:328577/1‑150 (MQ=255)                                                                                                                                  aGCGCAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCGGGCAGTTGGTGATGTTGCTGa               <  1:527190/151‑1 (MQ=255)                                                                                                                                      cAGGGCAACCACGCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCGGGCAGTTGGTGATGTTGCTGAATCg           <  2:297748/151‑1 (MQ=255)                                                                                                                                               cacgCTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCGGGCAGTTGGTGATGTTGCTGAATCGCCATCGTTa  <  1:180748/151‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                    TACATTCATGCTGACGATAAACACTCCTACGCTTCCGTTAACGATCTGGTTTTGCAGAATATTATTTATTGCCCGGAGCGTCTGAAGCTGAATCTTGACTGGCAGGGGGCGATTCCGGGATTTAACGCCAGCGCAGGGCAACCACACTGGCGCTTAGGTAGCATGGGGATGGCGCAGGCGCGGCAGGTTATCGGTCAGCTTGAGCATGAAAGTAGTCAGCATGTGCCGTTTGCTAACGAAATGGCTGAGTTGCTGTTCGGGCAGTTGGTGATGTTGCTGAATCGCCATCGTTA  >  NC_000913/4098844‑4099136

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑