Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	461,030	C→T	P715S (CCG→TCG)	lon →	Lon protease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	461,030	0	C	T	100.0%	204.3 / NA	59	P715S (CCG→TCG)	lon	Lon protease
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/26);  total (33/26)

AGGTGCGACGCCGAAAGATGGTCCGAGTGCCGGTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGCCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATCTGGACATTCATCCT  >  NC_000913/460897‑461164                                                                                                                                      |                                                                                                                                       aGGTGCGACGCCGAAAGATGGTCC‑AGTGCCGGTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGATCGGGGAGGTCACTCTGGGTGGGCAGGTACTGTCGATCgg                                                                                                                                 >  2:317104/1‑140 (MQ=255)     gCGACGCCGAAAGATGGTCCGAGTGCCGGTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCggtgg                                                                                                                              >  1:185022/1‑140 (MQ=255)                     gTCCGAGTGCCGGTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTc                                                                                                              >  1:692248/1‑140 (MQ=255)                          aGTGCCGGTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGc                                                                                                         >  2:416946/1‑140 (MQ=255)                           gTGCCGGTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCa                                                                                                        >  1:195834/1‑140 (MQ=255)                           gTGCCGGTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCa                                                                                                        >  2:643929/1‑140 (MQ=255)                                ggTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCa                                                                                                   >  1:455887/1‑140 (MQ=255)                                     tGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATcgcg                                                                                              >  2:481480/1‑140 (MQ=255)                                      gCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCgcgg                                                                                             <  2:811055/140‑1 (MQ=255)                                       cTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCgcggc                                                                                            <  2:195834/140‑1 (MQ=255)                                       cTATGTGCACCGCGCTGGTTTCGTGCCTGACCGGTTACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTAGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCgcggc                                                                                            <  2:297079/140‑1 (MQ=255)                                       cTATGTGCACCGCGCAGGTTTCTTGACTGACCGGTAATCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCgcggc                                                                                            <  1:338669/140‑1 (MQ=255)                                         aTGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGcggcgg                                                                                          >  1:471321/1‑140 (MQ=255)                                            tgCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGGCCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGAt                                                                                       >  2:471273/1‑140 (MQ=255)                                            tgCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGAt                                                                                       >  1:44841/1‑140 (MQ=255)                                            tgCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGAt                                                                                       >  2:183304/1‑140 (MQ=255)                                            tgCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGCTTTAAAAAAAAAACTCGTGGCAGCGCATCGCGGCGGGAt                                                                                       >  2:250915/1‑140 (MQ=255)                                            tgCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGATTTCATAAAAAAACTCCTGGCTCCGCATCGCGGCGGGAt                                                                                       >  2:368233/1‑140 (MQ=255)                                            tgCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGC‑ATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGAtt                                                                                      >  1:518423/1‑140 (MQ=255)                                                 cgcgCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTaaaa                                                                                  >  1:350982/1‑140 (MQ=255)                                                 cgcgCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTaaaa                                                                                  >  1:200899/1‑140 (MQ=255)                                                 cgcgCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGC‑ATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAAc                                                                                 <  2:518423/140‑1 (MQ=255)                                                  gcgcTGGTTTCTTGCCTGACCGGTATCCCCGTTCGTGTCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAAc                                                                                 <  1:368233/140‑1 (MQ=255)                                                    gcTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGTCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAGAAACTCCAGGCCGCACATCGCGGCGGGATTAAAACAg                                                                               >  1:312130/1‑140 (MQ=255)                                                      tGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTg                                                                             >  2:617661/1‑140 (MQ=255)                                                            cTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAAtt                                                                       <  2:44841/140‑1 (MQ=255)                                                              tGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTcc                                                                     >  2:542142/1‑140 (MQ=255)                                                                  tGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTc                                                                 >  1:188264/1‑140 (MQ=255)                                                                  tGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTc                                                                 >  2:431627/1‑140 (MQ=255)                                                                               ggTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAAcgcg                                                    <  2:560156/140‑1 (MQ=255)                                                                               ggTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAAcgcg                                                    <  2:551525/140‑1 (MQ=255)                                                                                 ttCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGAt                                                  <  1:471273/140‑1 (MQ=255)                                                                                   cGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCt                                                >  2:790147/1‑140 (MQ=255)                                                                                    gTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTg                                               <  1:416946/140‑1 (MQ=255)                                                                                      gCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGa                                             <  1:643929/140‑1 (MQ=255)                                                                                      gCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGa                                             <  1:183304/140‑1 (MQ=255)                                                                                        cGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAag                                           <  2:188264/140‑1 (MQ=255)                                                                                           tgtgGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAgaga                                        >  1:757273/1‑140 (MQ=255)                                                                                                    gACCGGTGAGATCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACa                               >  2:670944/1‑140 (MQ=255)                                                                                                             gaTCACTCTGCGTGGTCCGGTAGTGTCGATCGGTGCTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTg                      <  2:244481/140‑1 (MQ=255)                                                                                                             gaTCACTCTGCGTGGTCCGGTAATGTCGATCGGTGCTTTAAAAGAAAATCTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTg                      <  2:312130/140‑1 (MQ=255)                                                                                                             gaTCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTg                      <  2:692589/140‑1 (MQ=255)                                                                                                               tCACTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGcc                    >  1:13888/1‑140 (MQ=255)                                                                                                                 aCTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGa                  >  2:112625/1‑140 (MQ=255)                                                                                                                 aCTCTGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGa                  <  1:37518/140‑1 (MQ=255)                                                                                                                   tctGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATc                <  2:499482/140‑1 (MQ=255)                                                                                                                    ctGCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCAATCTGGAAGAGATTTCTGACAACGTAATTGCCGATCt               >  1:244481/1‑140 (MQ=255)                                                                                                                      gCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATc                <  1:599290/137‑1 (MQ=255)                                                                                                                      gCGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATc                >  2:599290/1‑137 (MQ=255)                                                                                                                       cGTGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATCTGGa            <  2:13888/140‑1 (MQ=255)                                                                                                                         tGGTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATCTGGACa          >  1:658187/1‑140 (MQ=255)                                                                                                                          ggTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATCTGGACAt         <  2:185022/140‑1 (MQ=255)                                                                                                                           gTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTg                      <  2:588553/126‑1 (MQ=255)                                                                                                                           gTCAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTg                      >  1:588553/1‑126 (MQ=255)                                                                                                                             cAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAG‑GATTCCTGACAACGTAATTGCCGATCTGGACAt         >  2:525201/1‑136 (MQ=255)                                                                                                                             cAGGTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAG‑GATTCCTGACAACGTAATTGCCGATCTGGACAt         <  1:525201/136‑1 (MQ=255)                                                                                                                               ggTACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATCTGGACATTCATc    <  2:757273/140‑1 (MQ=255)                                                                                                                               ggTACTGTCGATCGGTCGTTTGTAAGAAAAACTGCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATCTGGACATTCATc    <  2:350982/140‑1 (MQ=255)                                                                                                                                 tACTGTCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATCTGGACATTCATCCt  >  1:156595/1‑140 (MQ=255)                                                                                                                                      |                                                                                                                                       AGGTGCGACGCCGAAAGATGGTCCGAGTGCCGGTATTGCTATGTGCACCGCGCTGGTTTCTTGCCTGACCGGTAACCCGGTTCGTGCCGATGTGGCAATGACCGGTGAGATCACTCTGCGTGGTCAGGTACTGCCGATCGGTGGTTTGAAAGAAAAACTCCTGGCAGCGCATCGCGGCGGGATTAAAACAGTGCTAATTCCGTTCGAAAATAAACGCGATCTGGAAGAGATTCCTGACAACGTAATTGCCGATCTGGACATTCATCCT  >  NC_000913/460897‑461164

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑