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.

Polavarapu et al. Mobile DNA 2011 2:13   doi:10.1186/1759-8753-2-13