Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	568,004	G→A	*289* (TAG→TAA)	insF1 →	IS3 transposase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	568,004	0	G	A	100.0%	124.8 / NA	41	*289* (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (21/20);  total (21/20)

GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCAGAGAAGAA  >  NC_000913/567898‑568139                                                                                                           |                                                                                                                                        gggCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                         >  1:69630/1‑139 (MQ=11) gggCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                         <  2:550595/139‑1 (MQ=11)                 ttATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                         <  1:976269/139‑1 (MQ=255)                 ttATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                         <  2:354995/139‑1 (MQ=255)                    tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCg                                                                                      >  2:1041687/1‑139 (MQ=255)                    tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCg                                                                                      >  1:836980/1‑139 (MQ=255)                    tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCg                                                                                      >  2:156320/1‑139 (MQ=255)                    tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCg                                                                                      >  2:456103/1‑139 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGc                                                                                    >  2:176114/1‑139 (MQ=255)                               aTTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGgc                                                                           >  1:84618/1‑139 (MQ=255)                                   cAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCgg                                                                       >  1:444384/1‑139 (MQ=255)                                       cGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAg                                                                   >  2:746467/1‑139 (MQ=255)                                            gcggcggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATc                                                              <  1:10016/139‑1 (MQ=255)                                             cggcggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATcc                                                             <  1:156320/139‑1 (MQ=255)                                              ggcggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCt                                                            >  1:601069/1‑139 (MQ=255)                                                cggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGTGCAGGAATCCTgg                                                          <  2:1110872/139‑1 (MQ=255)                                                           gtgtGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGt                                               <  2:681112/139‑1 (MQ=255)                                                            tgtgGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTa                                              <  1:176114/139‑1 (MQ=255)                                                                gcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGt                                          >  1:110053/1‑139 (MQ=255)                                                                 cggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTG‑‑‑‑GGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGc                                     >  2:395452/1‑139 (MQ=25)                                                                 cggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTG‑‑‑‑GGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGc                                     <  1:395452/139‑1 (MQ=25)                                                                   gcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                         <  2:799482/89‑1 (MQ=255)                                                                   gcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                         >  1:799482/1‑89 (MQ=255)                                                                    ccTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTgg                                      >  1:956066/1‑139 (MQ=255)                                                                        aGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                                  <  2:444384/139‑1 (MQ=255)                                                                         gTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAAc                                 <  2:956066/139‑1 (MQ=255)                                                                           ccGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACgg                               <  2:110053/139‑1 (MQ=255)                                                                               aaCAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTa                           >  2:1551520/1‑139 (MQ=255)                                                                                   aTTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                                  >  2:1588723/1‑128 (MQ=255)                                                                                   aTTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                                  <  1:1588723/128‑1 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAgg                                                                                           <  1:285122/70‑1 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAgg                                                                                           >  2:285122/1‑70 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGtt                                                     <  1:1527208/108‑1 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGtt                                                     >  2:1527208/1‑108 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTAcc                      >  2:770130/1‑139 (MQ=255)                                                                                           aCAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGc               <  2:1349244/139‑1 (MQ=255)                                                                                                     cGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGgc                                                                           <  1:18151/69‑1 (MQ=255)                                                                                                     cGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGgc                                                                           >  2:18151/1‑69 (MQ=255)                                                                                                     cGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCAGagaa     >  1:319430/1‑139 (MQ=255)                                                                                                       cTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCAGagaaga   <  2:69630/139‑1 (MQ=255)                                                                                                        ttAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCAGAgaagaa  <  2:836980/139‑1 (MQ=255)                                                                                                           |                                                                                                                                        GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCAGAGAAGAA  >  NC_000913/567898‑568139

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑