Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	4,585,319	Δ1 bp	coding (350/915 nt)	lgoR ←	GntR family transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	4,585,317	0	C	.	100.0%	246.6 / NA	55	coding (352/915 nt)	lgoR	GntR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (27/28);  total (27/28)

AGCTGCTCGGCGTAGGATTGATCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGGCCCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCGGTAGTACAGGCGAAA  >  NZ_CP009273/4585190‑4585441                                                                                                                                |                                                                                                                             aGCTGCTCGGCGTAGGATTGATCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTg                                                                                                                  <  2:741558/139‑1 (MQ=255)     gctCGGCGTAGGATTGATCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGt                                                                                                              >  2:303925/1‑139 (MQ=255)       tCGGCGTAGGATTGATCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTC‑TACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGtt                                                                                                             >  1:734017/1‑137 (MQ=255)           cGTAGGATTGATCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGa                                                                                                         >  1:782279/1‑138 (MQ=255)             tAGGATTGATCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGaaaa                                                                                                      >  1:235133/1‑139 (MQ=255)                 aTTGATCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGtt                                                                                                  <  1:158318/139‑1 (MQ=255)                     aTCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTccc                                                                                              >  1:167966/1‑139 (MQ=255)                     aTCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTccc                                                                                              >  2:667881/1‑139 (MQ=255)                     aTCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTccc                                                                                              >  2:400294/1‑139 (MQ=255)                     aTCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTccc                                                                                              <  2:167966/139‑1 (MQ=255)                           ttGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGc                                                                                        <  1:443714/139‑1 (MQ=255)                                tCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAAc                                                                                   >  1:258448/1‑139 (MQ=255)                                tCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAAc                                                                                   >  1:52974/1‑139 (MQ=255)                                     cTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGgc                                                                               <  1:313611/138‑1 (MQ=255)                                     cTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGgc                                                                               <  1:366840/138‑1 (MQ=255)                                        cACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGgcgc                                                                             <  2:258448/137‑1 (MQ=255)                                        cACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGgcgc                                                                             <  1:627943/137‑1 (MQ=255)                                        cACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGCTTCCACTGGGCGCAACTGGCGCTg                                                                           >  2:313611/1‑139 (MQ=255)                                               cgcgCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTat                                                                     >  1:283010/1‑138 (MQ=255)                                                               aaTAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGcc                                                     <  1:461175/138‑1 (MQ=255)                                                                aTAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACg                                                                                                    <  1:494839/90‑1 (MQ=255)                                                                aTAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACg                                                                                                    >  2:494839/1‑90 (MQ=255)                                                                     aTTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCaa                                              <  1:543/139‑1 (MQ=255)                                                                         taACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGcc                                                     >  2:675190/1‑128 (MQ=255)                                                                         taACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGcc                                                     <  1:675190/128‑1 (MQ=255)                                                                         taACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAacac                                          >  2:89726/1‑139 (MQ=255)                                                                         taACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAacac                                          >  2:224287/1‑139 (MQ=255)                                                                         taACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTCCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAacac                                          >  2:186926/1‑139 (MQ=255)                                                                           aCGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACt                                         <  1:264725/138‑1 (MQ=255)                                                                           aCGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACt                                         <  1:20110/138‑1 (MQ=255)                                                                               ccGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACtttgtt                                    >  2:684454/1‑139 (MQ=255)                                                                                cGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACtttgttt                                   >  2:419746/1‑139 (MQ=255)                                                                                    ttttAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTttgttttgtt                               <  2:283010/139‑1 (MQ=255)                                                                                       tAAAAGATATTCTC‑TACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCAc                            <  2:734017/138‑1 (MQ=255)                                                                                           aGATATTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCAt                        <  2:782279/139‑1 (MQ=255)                                                                                              tatTCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGa                     <  1:224287/139‑1 (MQ=255)                                                                                                ttCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAg                   <  1:303925/139‑1 (MQ=255)                                                                                                ttCTCTTACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAg                   <  1:89726/139‑1 (MQ=255)                                                                                                     ttACTACAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCgg                <  1:684454/137‑1 (MQ=255)                                                                                                      tactacAACCGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCGgtag             >  2:411406/1‑139 (MQ=255)                                                                                                              ccGGGCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCGGTAGTACAGGCg     <  1:419746/139‑1 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAAc                                                                                   <  2:605364/58‑1 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAAc                                                                                   >  1:605364/1‑58 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGgc                                                                               <  1:846373/62‑1 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGgc                                                                               >  2:846373/1‑62 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGcc                                                     >  2:538430/1‑88 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGcc                                                     <  1:538430/88‑1 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAg                   <  2:462574/122‑1 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAg                   >  1:462574/1‑122 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCGGTAGTAc          <  1:3835/131‑1 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCGGTAGTAc          >  2:3835/1‑131 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCGGTAGTACAGGCGaaa  >  1:237976/1‑139 (MQ=255)                                                                                                                 ggCTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCGGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCGGTAGTACAGGCGaaa  >  1:188693/1‑139 (MQ=255)                                                                                                                   cTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGgcg                                                                              <  1:413648/61‑1 (MQ=255)                                                                                                                   cTGACACCCGCGG‑CCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGgcg                                                                              >  2:413648/1‑61 (MQ=255)                                                                                                                                |                                                                                                                             AGCTGCTCGGCGTAGGATTGATCGAATTGCTTCATGCTCCACTGGCCGCGCTTTTCGCTGTGAATAAGATTATAACGGCCGAATTTTAAAAGATATTCTCTTACTACAACCGGGCTGACACCCGCGGCCCGAGCCAGTTGCAGTTCAGAAAACGTTTCCCCTGGGCGTAACTGGCGCTGGTTTATCATCGTGAAAAAAGCCTGCTCAAACACTTTGTTTTGTTCACTCATTGAAGCGGTAGTACAGGCGAAA  >  NZ_CP009273/4585190‑4585441

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑