Table 1.
Number of INDELs associated with different categories of sequences
| 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 |
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.