Additional File 1:

Supplementary Tables S1–S5. Supplementary Table S1 gives the distribution of each IS family and group defined in the database ISfinder. Supplementary Table S2 gives the comparison between our predictions and the NCBI annotations. Supplementary Table S3 gives the number of raIS elements in the consecutive windows with length 100 kb for each of the nucleotide sequences of the 50 organisms. Supplementary Table S4 collects the living environments of the 50 organisms. Supplementary Table S5 gives the enrichment analysis of each GO term with P-value <= 0.05.

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Additional File 2:

Supplementary Figures S1–S3. Supplementary Figure S1 shows the schematic profiles of all the 36 IS groups with at least 10 members. Supplementary Figure S2 (a) and (b) compare the conservation percentages between pairs of IS elements at the levels of IS groups and families, respectively. Supplementary Figure S3 shows how to retrieve TIR signals for a predicted full copy of a TIR IS element.

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