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%	183.3 / NA	58	*302* (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (30/28);  total (30/28)

GCTGATAAATAATCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGC  >  NC_000913/2996236‑2996483                                                                                                                                         |                                                                                                                gCTGATAAATAATCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTta                                                                                                               <  2:755460/139‑1 (MQ=255)    gATAAATAATCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTatat                                                                                                            >  1:755288/1‑139 (MQ=255)     ataaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGAGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATAtt                                                                                                           >  2:544237/1‑139 (MQ=255)       aaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         >  2:527461/1‑139 (MQ=255)       aaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         >  2:493386/1‑139 (MQ=255)       aaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         >  2:180687/1‑139 (MQ=255)       aaataaTCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         >  1:399855/1‑139 (MQ=255)              cccTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACAt                                                                                                  <  2:399855/139‑1 (MQ=255)                   aGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGtt                                                                                             <  2:451586/139‑1 (MQ=255)                    gTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                            <  1:221843/139‑1 (MQ=255)                    gTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                            <  2:571107/139‑1 (MQ=255)                       cATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         >  1:113193/1‑123 (MQ=255)                       cATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         <  2:113193/123‑1 (MQ=255)                        aTCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCAc                                                                                        >  1:130574/1‑139 (MQ=255)                         tCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                       >  2:435007/1‑139 (MQ=255)                             gAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAc                                                                                   <  1:66573/139‑1 (MQ=255)                              aaCCTTATAAATAAACCCGCGTTCTGCAAACCTTTCCCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                  <  1:47100/139‑1 (MQ=255)                              aaCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAcc                                                                                  <  2:530464/139‑1 (MQ=255)                               aCCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCATTGCGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAAccc                                                                                 >  2:622923/1‑139 (MQ=255)                                  ttATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         >  1:15807/1‑112 (MQ=255)                                  ttATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         <  2:15807/112‑1 (MQ=255)                                  ttATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCAtt                                                                              >  1:752016/1‑139 (MQ=255)                                    ataAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTAc                                                                            >  2:305154/1‑139 (MQ=255)                                     taAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACa                                                                           >  1:738587/1‑139 (MQ=255)                                     taAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACa                                                                           >  1:667755/1‑139 (MQ=255)                                             cccGCGTTCTGCAAAACTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTACCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCt                                                                   <  2:130574/139‑1 (MQ=255)                                                 cgTTCTTCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCg                                                               <  1:493386/139‑1 (MQ=255)                                                           aCCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGcc                                                                       >  2:371008/1‑121 (MQ=255)                                                           aCCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGcc                                                                       <  1:371008/121‑1 (MQ=255)                                                                  tcGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcg                                              <  1:675036/139‑1 (MQ=255)                                                                  tcGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcg                                              <  1:527461/139‑1 (MQ=255)                                                                    gATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcgag                                            <  2:667755/139‑1 (MQ=255)                                                                              aCAACCACTGAGTAAACAGATCAATGGAAGTAAATCCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCa                                  <  2:755288/139‑1 (MQ=255)                                                                                 aCCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCCGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                               <  1:238276/139‑1 (MQ=255)                                                                                 aCCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                               <  2:738587/139‑1 (MQ=255)                                                                                        aGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         <  1:415941/58‑1 (MQ=255)                                                                                        aGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTc                                                                                                         >  2:415941/1‑58 (MQ=255)                                                                                        aGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATg                        >  2:358871/1‑139 (MQ=255)                                                                                        aGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATg                        >  2:13020/1‑139 (MQ=255)                                                                                            aaCAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGc                       <  1:466903/136‑1 (MQ=255)                                                                                            aaCAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGc                       >  2:466903/1‑136 (MQ=255)                                                                                             aCAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGAt                   >  2:748359/1‑139 (MQ=255)                                                                                              cAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATg                  <  1:748359/139‑1 (MQ=255)                                                                                                gATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                >  2:189087/1‑139 (MQ=255)                                                                                                  tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAt              >  1:225175/1‑139 (MQ=255)                                                                                                  tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCA‑ATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                <  2:366835/136‑1 (MQ=255)                                                                                                  tCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCA‑ATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                >  1:366835/1‑136 (MQ=255)                                                                                                      tGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCa                             <  2:251312/120‑1 (MQ=255)                                                                                                      tGGAAGTAAATTCCAATGGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCa                             >  1:251312/1‑120 (MQ=255)                                                                                                        gAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGcc                                                                       <  1:241671/76‑1 (MQ=255)                                                                                                        gAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGcc                                                                       >  2:241671/1‑76 (MQ=255)                                                                                                        gAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATa                                       <  2:336368/108‑1 (MQ=255)                                                                                                        gAAGTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATa                                       >  1:336368/1‑108 (MQ=255)                                                                                                           gTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGc                                                              >  2:485333/1‑82 (MQ=255)                                                                                                           gTAAATTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGc                                                              <  1:485333/82‑1 (MQ=255)                                                                                                              aaTTCCAATTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGTGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGc  >  1:237959/1‑139 (MQ=255)                                                                                                                    aaTTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                     >  2:683063/1‑66 (MQ=255)                                                                                                                    aaTTGTTTATTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCg                                                                     <  1:683063/66‑1 (MQ=255)                                                                                                                                         |                                                                                                                GCTGATAAATAATCCCTTAGTACATCAGGAACCTTATAAAAAAACCCGCGTTCTGCAAACCTTTCTCGATAAAAGTGACAACCACTGAGTAAACAGATCAATGGAAGTAAATTCCAATTGTTTATTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGC  >  NC_000913/2996236‑2996483

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑