Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	AM260479	724,768	+C	coding (82/669 nt)	lysE →	lysine efflux permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AM260479	724,766	1	.	C	100.0%	106.1 / NA	28	R27P (CGC→CCC)	lysE	lysine efflux permease
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (13/15);  total (13/15)

CGTGATCCTGGGTGTAGTGGCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCG‑CCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTCC  >  AM260479/724636‑724890                                                                                                                                    |                                                                                                                             cGTGATCCTGGGTGTAGTGGCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACgccg‑ccc                                                                                                                           >  2:360180/1‑133 (MQ=255) cGTGATCCTGGGTGTAGTGACGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACgccg‑ccc                                                                                                                           >  1:552976/1‑133 (MQ=255)  gTGATCCTGGGTGTAGTGGCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACgccg‑ccct                                                                                                                          <  1:360180/134‑3 (MQ=255)                    acGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCg                                                                                                          <  2:552976/132‑1 (MQ=255)                           gTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTc                                                                                                           <  2:572709/125‑1 (MQ=255)                           gTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTc                                                                                                           >  1:572709/1‑125 (MQ=255)                           gTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCg                                                                                                          <  1:587226/126‑1 (MQ=255)                           gTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCg                                                                                                          >  2:587226/1‑126 (MQ=255)                             aGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCt                                                                                                >  2:191685/1‑134 (MQ=255)                                    cGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCtt                                                                                         <  1:987369/134‑1 (MQ=255)                                     ggCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTg                                                                                        <  1:450882/134‑1 (MQ=255)                                                         cgggcATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCt                                                                    >  1:954511/1‑134 (MQ=255)                                                                          cccGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCt                                                                                                            >  1:122170/1‑77 (MQ=255)                                                                          cccGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCt                                                                                                            <  2:122170/77‑1 (MQ=255)                                                                            cGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGt                                                 >  1:753572/1‑134 (MQ=255)                                                                                     ataataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGcgcg                                        <  2:753572/134‑1 (MQ=255)                                                                                      taataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGa                                       <  2:863244/134‑1 (MQ=255)                                                                                        ataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGa                                       <  2:30128/132‑1 (MQ=255)                                                                                        ataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGa                                       >  1:30128/1‑132 (MQ=255)                                                                                                  aaaaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGcgcg                                        <  1:902103/121‑1 (MQ=255)                                                                                                  aaaaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGcgcg                                        >  2:902103/1‑121 (MQ=255)                                                                                                  aaaaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGa                                       <  1:687725/122‑1 (MQ=255)                                                                                                  aaaaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGa                                       >  2:687725/1‑122 (MQ=255)                                                                                                    aaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGtgctg                                                           <  2:6067/100‑1 (MQ=255)                                                                                                    aaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGtgctg                                                           >  1:6067/1‑100 (MQ=255)                                                                                                    aaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTgc                                              >  1:701585/1‑113 (MQ=255)                                                                                                    aaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTgc                                              <  2:701585/113‑1 (MQ=255)                                                                                                                tCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGTGACAAGGGTTGCGGCGCGAGCAtg                                  <  2:665271/113‑1 (MQ=255)                                                                                                                tCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCAtg                                  >  1:665271/1‑113 (MQ=255)                                                                                                                             cACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTcc  <  2:325695/132‑1 (MQ=255)                                                                                                                             cACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTcc  >  1:325695/1‑132 (MQ=255)                                                                                                                               cgccgcCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTcc  >  1:673102/1‑130 (MQ=255)                                                                                                                               cgccgcCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTcc  <  2:673102/130‑1 (MQ=255)                                                                                                                                    |                                                                                                                             CGTGATCCTGGGTGTAGTGGCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCG‑CCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTCC  >  AM260479/724636‑724890

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑