Supplementary_Tables_Scheben_et_al_2020

These supplementary tables are data associated with the preprint: <br>Armin Scheben, Olivia Mendivil Ramos, Melissa Kramer, Sara Goodwin, Sara Oppenheim, Daniel Becker, Michael C Schatz, Nancy B Simmons, Adam Siepel, W Richard McCombie. 2020. Unraveling molecular mechanisms of immunity and cancer-resistance using the genomes of the Neotropical bats Artibeus jamaicensis and Pteronotus mesomericanus. bioRxiv.<br>Table legends<br>Table S4. Recent accumulations of transposable elements identified by RepeatMasker in six noctilionid reference genomes. Base pairs counted are from non-overlapping elements with &lt;6.6% divergence from the consensus sequence as determined by Kimura 2-Parameter corrected rate calculated by calcDivergenceFromAlign.pl.<br>Table S5. Number of confident (&lt;1e-5) unique blastx alignments of putatative endogenous viral elements to viral families in four noctiolionid bat genomes<br>Table S6. Number of confident (&lt;1e-5) unique blastx alignments of putatative endogenous viral elements to viral genera in four noctiolionid bat genomes<br>Table S7. BLASTX alignment results (&lt;1e-5) for putative non-retroviral endogenous viral elements of four noctilionid bats<br>Table S8. BLASTX alignment results (&lt;1e-5) for putative retroviral endogenous viral elements of four noctilionid bats<br>Table S9. Table S9. Positively selected genes in the bat ancestor. Raw and within-gene FDR-corrected p-values are provided for the HyPhy aBS-REL test as well as the likelihood ratio test for PAML Test 2 and the null hypothesis Test 2 fixed. Two phylogenetic trees are used, with alternative relationships between laurasiatherian mammals: Tree 1 (Chiroptera + Perissodactyla are sister to the Carnivora + Cetartiodactyla) and Tree 2 (bats as the sister group to a the clade (Cetartiodactyla+Perissodactyla) + Carnivora). Functional groups are defined based on GO annotations for the categories immunity, DNA repair, telomere maintenance, aging, reproduction, thermoregulation, hearing and digestion; genes not belonging to these categories are classified as NA.<br>