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%	159.2 / NA	42	R27P (CGC→CCC)	lysE	lysine efflux permease
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (20/22);  total (20/22)

TGATCCTGGGTGTAGTGGCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCG‑CCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTCCGAT  >  AM260479/724638‑724893                                                                                                                                  |                                                                                                                                tGATCCTGGGTGTAGTGGCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACgccg‑ccctg                                                                                                                            <  1:705049/134‑4 (MQ=255)           tgtAGTGGCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTtct                                                                                                                   <  2:795653/134‑1 (MQ=255)                  gCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCgg                                                                                                            >  2:38662/1‑134 (MQ=255)                         gTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTcc                                                                                                     >  2:397421/1‑134 (MQ=255)                           aGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCt                                                                                                   >  2:460614/1‑134 (MQ=255)                                           tGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCgg                                                                                    >  2:714460/1‑133 (MQ=255)                                           tGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCgg                                                                                    <  1:714460/133‑1 (MQ=255)                                              gAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTcc                                                                                <  1:460614/134‑1 (MQ=255)                                               aaGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTccc                                                                               <  1:397421/134‑1 (MQ=255)                                               aaGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTccc                                                                               <  2:712613/134‑1 (MQ=255)                                                   tGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGaa                                                                           >  2:771441/1‑134 (MQ=255)                                                           cATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCg                                                                   <  1:38662/134‑1 (MQ=255)                                                                    tGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTc                                                                    >  2:858091/1‑124 (MQ=255)                                                                    tGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTc                                                                    <  1:858091/124‑1 (MQ=255)                                                                        cccGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGtgctg                                                              <  1:586839/126‑1 (MQ=255)                                                                        cccGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGtgctg                                                              >  2:586839/1‑126 (MQ=255)                                                                             cGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTgc                                                 <  2:41421/134‑1 (MQ=255)                                                                                     aataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCg                                                                                                             <  1:623177/66‑1 (MQ=255)                                                                                     aataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCg                                                                                                             >  2:623177/1‑66 (MQ=255)                                                                                     aataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGtgctg                                                              <  1:974785/113‑1 (MQ=255)                                                                                     aataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGtgctg                                                              >  2:974785/1‑113 (MQ=255)                                                                                      ataGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAg                                         >  2:411603/1‑133 (MQ=255)                                                                                           cACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCAtgtg                                   >  1:154436/1‑134 (MQ=255)                                                                                             cccAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCt                                                                       <  2:574534/96‑1 (MQ=255)                                                                                             cccAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCt                                                                       >  1:574534/1‑96 (MQ=255)                                                                                              ccAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTc                                <  1:771441/134‑1 (MQ=255)                                                                                              ccAAAAAAACAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTc                                <  1:554039/134‑1 (MQ=255)                                                                                                aaaaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAgg                                                      >  2:766192/1‑110 (MQ=255)                                                                                                aaaaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAgg                                                      <  1:766192/110‑1 (MQ=255)                                                                                                  aaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAg                                         <  1:1028969/121‑1 (MQ=255)                                                                                                  aaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAg                                         >  2:1028969/1‑121 (MQ=255)                                                                                                  aaaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATGCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTggg                            >  2:962514/1‑134 (MQ=255)                                                                                                   aaaaCAGCCGTTCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGt                           <  1:244155/134‑1 (MQ=255)                                                                                                             ttCCACATCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGgtg                 <  2:115910/134‑1 (MQ=255)                                                                                                              tCCACATCCAATGCACGCCGCCCTGGCCGGCTtct                                                                                                                   <  2:623115/35‑1 (MQ=25)                                                                                                              tCCACATCCAATGCACGCCGCCCTGGCCGGCTtct                                                                                                                   >  1:623115/1‑35 (MQ=25)                                                                                                                   aTCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTg                                                                                           >  1:133514/1‑54 (MQ=39)                                                                                                                   aTCCAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTg                                                                                           <  2:133514/54‑1 (MQ=39)                                                                                                                      cAATGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCtt        <  1:962514/134‑1 (MQ=255)                                                                                                                         tGCACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTcc     <  1:411603/134‑1 (MQ=255)                                                                                                                           cACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTCCGa   >  1:672192/1‑134 (MQ=255)                                                                                                                           cACGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTCCGa   >  2:1056291/1‑134 (MQ=255)                                                                                                                            aCGCCGCCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTCCGAt  >  1:870376/1‑134 (MQ=255)                                                                                                                             cgccgcCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCgg                                                                                    >  1:892623/1‑51 (MQ=255)                                                                                                                             cgccgcCCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCgg                                                                                    <  2:892623/51‑1 (MQ=255)                                                                                                                                  |                                                                                                                                TGATCCTGGGTGTAGTGGCGTGAGGTAGTCCTGCGGCAGGAATGGGAAGATGGGCGGGCATGGCGGCTGCCCCCGGCGTGCAATAATAGCCACCCAAAAAAACAGCCGTTCCACATCCAATGCACGCCG‑CCTGGCCGGCTTCTCCCTCGGTCTTTCCCTGATTCTTGCCATCGGTTCCCAGAATGCTTTCGTGCTGCGACAAGGGTTGCGGCGCGAGCATGTGTTCTGGGTCTGCCTGGTGTGCGCGCTTTCCGAT  >  AM260479/724638‑724893

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑