Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,027,998	T→C	E179G (GAA→GGA)	lysS ←	lysine‑‑tRNA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,027,998	0	T	C	100.0%	151.3 / NA	42	E179G (GAA→GGA)	lysS	lysine‑‑tRNA ligase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (18/24);  total (18/24)

TAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGA  >  NZ_CP009273/3027864‑3028125                                                                                                                                       |                                                                                                                                tAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATc                                                                                                                             >  2:332889/1‑139 (MQ=255) tAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATc                                                                                                                             >  1:517841/1‑139 (MQ=255)   aaCGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGt                                                                                                                           <  1:541705/139‑1 (MQ=255)   aaCGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGt                                                                                                                           <  1:417314/139‑1 (MQ=255)    aCGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGtt                                                                                                                          <  1:332889/139‑1 (MQ=255)        aCGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGgag                                                                                                                      <  2:548069/139‑1 (MQ=255)               gCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGTGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGgagatgagat                                                                                                               <  2:411680/139‑1 (MQ=255)                                 aCCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGa                                                                                              >  1:722751/1‑138 (MQ=255)                                   cTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAg                                                                                           <  1:223007/139‑1 (MQ=255)                                      catcatCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAgcg                                                                                         <  2:722751/138‑1 (MQ=255)                                       atcatcGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAgcgcg                                                                                       <  2:517841/139‑1 (MQ=255)                                       atcatcGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAgcgcg                                                                                       <  2:48666/139‑1 (MQ=255)                                                         tCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGc                                                                     >  1:4260/1‑139 (MQ=255)                                                           cATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCg                                                                   <  1:400377/139‑1 (MQ=255)                                                               aaGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGa                                                               <  1:62483/139‑1 (MQ=255)                                                                     cgGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTAt                                                         >  1:171935/1‑139 (MQ=255)                                                                                gAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGgagatgagat                                                                                                               >  1:173651/1‑74 (MQ=255)                                                                                gAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGgagatgagat                                                                                                               <  2:173651/74‑1 (MQ=255)                                                                                      gCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCa                                                                        <  1:327537/107‑1 (MQ=255)                                                                                      gCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCa                                                                        >  2:327537/1‑107 (MQ=255)                                                                                      gCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGt                                        >  2:654400/1‑139 (MQ=255)                                                                                           tACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCttt                                   >  1:543470/1‑139 (MQ=255)                                                                                             ccAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTgg                                 <  1:585145/139‑1 (MQ=255)                                                                                                     gATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGa                         >  1:755624/1‑139 (MQ=255)                                                                                                           cGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACg                       <  1:654400/135‑1 (MQ=255)                                                                                                           cGAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCa                     <  1:330742/137‑1 (MQ=255)                                                                                                            gAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACt                  <  1:452672/139‑1 (MQ=255)                                                                                                            gAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACt                  <  2:439325/139‑1 (MQ=255)                                                                                                            gAGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTCCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACt                  <  2:631241/139‑1 (MQ=255)                                                                                                             aGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCa                                                   >  2:192865/1‑105 (MQ=255)                                                                                                             aGCGCACTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCa                                                   <  1:192865/105‑1 (MQ=255)                                                                                                                  aCTTTAAAGGTGTTGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGc            <  2:118794/139‑1 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCa                                                                        <  2:553992/67‑1 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCa                                                                        >  1:553992/1‑67 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTcag                             <  2:631949/110‑1 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTcag                             >  1:631949/1‑110 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACg                       >  2:316510/1‑116 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACg                       <  1:316510/116‑1 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGa  >  2:304939/1‑137 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGa  >  1:251253/1‑137 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGa  >  2:144824/1‑137 (MQ=255)                                                                                                                              ttGCGGGATCCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGa  >  1:736509/1‑137 (MQ=255)                                                                                                                                       |                                                                                                                                TAAACGGACGCGCAGCGGCACCGCCAGGGATCACCTGCATCATCGGCGTTTCAACTTCCATAAAGCCGCGGTTCACCATGAACTGGCGAATACCAGAGAGGATCTGCGAGCGCACTTTAAAGGTGTTGCGGGATTCATCGTTGGAGATGAGATCGAGATAACGCTGACGATAGCGCGCTTCCTGATCCTGCAAGCCGTGGAATTTATCCGGCAGCGGACGCAGTGCTTTGGTCAGCAGACGCAACTCGGTGCAGTGGATAGA  >  NZ_CP009273/3027864‑3028125

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: ‑