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Table 1 Number of INDELs associated with different categories of sequences

From: Characterization and potential functional significance of human-chimpanzee large INDEL variation

Categories of gaps Human gaps Chimpanzee gaps Total INDELs (HGs + CGs)
Total gaps 11,365 15,144 26,509
Interspersed repeats (all) 7,176 11,398 18,574
   Interspersed sequences (retrotransposons) 7,121 11,355 18,476
Retrotransposons (SINEs) 3,494 7,021 10,515
Retrotransposons (LINEs) 1,847 2,052 3,899
Retrotransposons (ERVs) 519 356 875
Retrotransposons (SVAs) 114 681 795
Retrotransposons (MEs) 1,147 1,245 2,392
   Interspersed sequences (DNA elements) 55 43 98
Noninterspersed sequences (all) 4,189 3,746 7,935
   Noninterspersed sequences/tandem repeats (NIS/TR) 1,266 1,334 2,600
   Noninterspersed sequences/unique sequences (NIS/US) 2,923 2,412 5,335
  1. CG = chimpanzee gap; ERV = endogenous retrovirus; HG = human gap; INDEL = insertion and deletion; LINE = long interspersed nuclear element; ME = mosaic element; NIS = noninterspersed sequence; SINE = short interspersed nuclear element; SVA = biologically active composite elements consisting of fragments of SINE, VNTRs and Alu elements; TR = tandem repeat; US = unique sequence; VNTR = variable number of tandem repeats. Interspersed repeats are transposable element sequences that are present multiple times throughout the genome. The majority of interspersed repeats are retrotransposon sequences (subcategories: SINEs, LINEs, ERVs, SVAs, and MEs). DNA family transposable elements constitute less than 1% of interspersed repeats. Noninterspersed sequences are TRs or USs that map to specific INDEL sites in the genome.