Table 2 Genetic diversity standard measures for Primates, Mammals and Primates with more distantly related sequences, aligned with several alignment tools without and after circularization an rotation in CSA.

First set (Primates)

size (bp)

18033

17447

18388

17800

polymorphic sites

10910

10295

11290

10673

transitions

9429

9387

9132

9112

transversions

5226

5167

5105

5106

substitutions

14655

14554

14237

14218

indels

2544

1620

3227

2508

Mean no. of pairwise differences

4303 +/- 1939

4084 +/- 1840

4391 +/- 1978

4223 +/- 1903

Nucleotide diversity

0.239 +/- 0.120

0.234 +/- 0.118

0.239 +/- 0.121

0.237 +/- 0.120

Second set (Mammals)

size (bp)

19220

18612

21745

20820

polymorphic sites

12591

11995

15177

14204

transitions

9987

10090

8977

9177

transversions

6625

6607

6195

6336

substitutions

16612

16697

15172

15513

indels

3916

2988

7420

6283

Mean no. of pairwise differences

5640 +/- 2592

5386 +/- 2475

6200 +/- 2849

6044 +/- 2778

Nucleotide diversity

0.293 +/- 0.152

0.289 +/- 0.150

0.285 +/- 0.148

0.290 +/- 0.150

Third set (Primates + Drosophila melanogaster + Gallus gallus + Crocodylus niloticus)

size (bp)

19964

20196

29363

27978

polymorphic sites

17514

17072

26733

25056

transitions

13594

13252

7177

7562

transversions

9777

9328

5238

5453

substitutions

23371

22580

12415

13015

indels

5473

5024

21689

19146

Mean no. of pairwise differences

5892 +/- 2631

5568 +/- 2486

7018 +/- 3133

6729 +/- 3004

Nucleotide diversity

0.295 +/- 0.147

0.276 +/- 0.138

0.239 +/- 0.119

0.241 +/- 0.120