Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,996,372	C→T	*302* (TAG→TAA)	insD1 ←	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,996,372	0	C	T	100.0%	131.4 / NA	44	*302* (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (24/20);  total (24/20)

TAAATAATCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTG  >  NC_000913/2996241‑2996496                                                                                                                                    |                                                                                                                             taaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTta                                                                                                                            >  2:742875/1‑134 (MQ=255) taaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATAttt                                                                                                                       >  2:914844/1‑139 (MQ=255)       atCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTtat                                                                                                                           <  2:582697/129‑1 (MQ=255)       atCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTtat                                                                                                                           >  1:582697/1‑129 (MQ=255)                       ggAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTaa                                                                                                 <  1:914844/139‑1 (MQ=255)                        gAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                         >  2:55341/1‑130 (MQ=255)                        gAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                         <  1:55341/130‑1 (MQ=255)                        gAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAc                                                                                                >  2:1001408/1‑139 (MQ=255)                         aaCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                               <  1:1001408/139‑1 (MQ=255)                          aCCTTATAAAAAAACCCGCGTTCTGCAGACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTACCAGACATCTGTTATGACTTAGccc                                                                                              >  1:836586/1‑139 (MQ=39)                          aCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAccc                                                                                              >  2:267357/1‑139 (MQ=255)                          aCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                               >  2:562740/1‑138 (MQ=255)                          aCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                               <  1:562740/138‑1 (MQ=255)                                      aaCCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                                  >  1:550298/1‑139 (MQ=255)                                       aCCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTAc                                                                                         >  1:995015/1‑131 (MQ=255)                                       aCCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTAc                                                                                         <  2:995015/131‑1 (MQ=255)                                       aCCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGc                                                                                 <  1:267357/139‑1 (MQ=255)                                                        cTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                               >  2:924035/1‑108 (MQ=255)                                                        cTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                               <  1:924035/108‑1 (MQ=255)                                                        cTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                                  >  1:25695/1‑121 (MQ=255)                                                        cTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                                  <  2:25695/121‑1 (MQ=255)                                                                            aCCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                                            <  2:550298/139‑1 (MQ=255)                                                                                cTGAGTAAACAGATCAATGGAAATAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACt                                        <  1:443680/139‑1 (MQ=255)                                                                                 tGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                    <  1:419507/78‑1 (MQ=255)                                                                                 tGAGAAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                    >  2:419507/1‑78 (MQ=255)                                                                                  gAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCACGTGGCGAGCGATAACCCAGCGCACTAt                                      >  1:774693/1‑139 (MQ=255)                                                                                           gATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTACAGACATGTGTTAGCACTTAACACATTACAAGACCGCTGCCGCAGATATTTCCGTGGCGAGCGATAAACCAGCGCACTATGCGGATGcg                             >  2:159234/1‑138 (MQ=17)                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                    >  1:943869/1‑66 (MQ=255)                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                    <  2:943869/66‑1 (MQ=255)                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                                  <  1:94512/84‑1 (MQ=255)                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                                  >  2:94512/1‑84 (MQ=255)                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                             <  1:1240829/137‑1 (MQ=255)                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                             >  2:1240829/1‑137 (MQ=255)                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAt                           <  1:890564/139‑1 (MQ=255)                                                                                             tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTACCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAt                           <  2:524823/139‑1 (MQ=255)                                                                                               aaTGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGTGGATGCCATTc                         >  2:159804/1‑139 (MQ=255)                                                                                                      gTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACAt                                                                                                               <  2:591859/46‑1 (MQ=255)                                                                                                      gTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACAt                                                                                                               >  1:591859/1‑46 (MQ=255)                                                                                                           ttCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTc             >  2:1204965/1‑139 (MQ=255)                                                                                                                     ttATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGa                                 >  2:533991/1‑109 (MQ=14)                                                                                                                     ttATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGa                                 <  1:533991/109‑1 (MQ=14)                                                                                                                      tATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcgagcga                                                      <  1:832913/87‑1 (MQ=14)                                                                                                                      tATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTg  >  2:49128/1‑139 (MQ=11)                                                                                                                      tATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTg  >  2:403492/1‑139 (MQ=11)                                                                                                                                    |                                                                                                                             TAAATAATCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTG  >  NC_000913/2996241‑2996496

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑