Novel MEI events. Novel MEI events, as detected by WGS on the CG platform, in 100 samples (detailed in ). (A) Total novel L1Hs. High numbers were detected in the brain samples and particularly in the SEGA, Rett, AT and NSA samples. The y axis shows the number of novel L1Hs insertion events. (B) Total novel AluY. (C, D) The polymorphic novel L1Hs (C) and AluY (D) insertions we identified by CG sequencing, that were also found in the 1000 Genomes Project data. Note the uniformity of numbers of novel polymorphic germline insertions in the various samples. The normal LB samples with the highest number of polymorphic L1Hs and AluY belong to the YRI population and are highlighted in blue. (E, F) Somatic insertions of L1Hs (E) and AluY (F) are shown for all the samples we analyzed. Somatic L1Hs and AluY were high mainly in the brain samples particularly in AT, NSA, Rett and SEGA samples. Note the scale break in the y axis in (A) and (E) and the different scales in the different panels. The x axis is common to all the panels: AT, ataxia telangiectasia; NSA, non syndromic autism; Rett, Rett syndrome; SEGA, TSC-specific subependymal giant cell astrocytomas; PB, Peripheral Blood; TSC, TSC non tumoral brain sample; NB, normal brain; LB, normal lymphoblastoid cell lines representing various ethnic populations. Population name abbreviations: ASW, African ancestry in Southwest USA; CEU, Utah residents with Northern and Western European ancestry from the CEPH collection; CHB, Han Chinese in Beijing, China; GIH, Gujarati Indian in Houston, Texas, USA; JPT, Japanese in Tokyo, Japan; LWK, Luhya in Webuye, Kenya; MKK, Maasai in Kinyawa, Kenya; MXL, Mexican ancestry in Los Angeles, California; TSI, Toscans in Italy; YRI, Yoruba in Ibadan, Nigeria; PUR, Puerto Rican in Puerto Rico; P (PDRP), an individual from the polymorphism discovery resource; T: (TRIO), two parents and one child.