Table 4 |
||||||||
|
Summary statistics of DNA polymorphisms analyzed in the study |
||||||||
|
Mitochondrial domain used for taxonomic comparisions |
||||||||
|
|
||||||||
|
Sequence Parameters |
Complete Cyto-B gene |
Partial Cyto-B gene |
16S rRNA gene |
D-loop (CR-I) 233 bp |
D-loop (CR-I) 545 bp |
D-loop (CR-I) 651 bp |
D-loop (CR-I) 675 bp |
D-loop Region-II |
|
|
||||||||
|
Sequences compared |
5 |
35 |
27 |
80 |
50 |
33 |
24 |
11 |
|
Sequence size compared (bp) |
1140 |
332 |
554 |
233 |
545 |
651 |
675 |
294 |
|
Sequence size without gaps/'N' (bp) |
1132 |
280 |
554 |
210 |
505 |
608 |
656 |
252 |
|
Polymorphic nucleotides |
232 |
77 |
32 |
35 |
72 |
73 |
75 |
22 |
|
Singleton polymorphic nucleotides |
178 |
34 |
. |
14 |
33 |
39 |
44 |
16 |
|
Informative nucleotides |
54 |
43 |
32 |
21 |
39 |
34 |
31 |
6 |
|
|
||||||||
|
Base composition (average) |
||||||||
|
A : |
28.9% |
28.2% |
26.7% |
30.5% |
26.9% |
27.3% |
27.2% |
33.6% |
|
C : |
27.6% |
23.0% |
20.3% |
24.0% |
27.1% |
26.5% |
25.6% |
21.4% |
|
G : |
14.2% |
16.6% |
21.7% |
12.3% |
14.9% |
15.3% |
16.3% |
11.3% |
|
T : |
29.4% |
32.2% |
31.3% |
33.2% |
31.1% |
30.9% |
30.9% |
33.7% |
|
|
||||||||
|
Observed Transition/transversion ratios (over all sites/sequences/pair-wise comparisions) |
||||||||
|
|
||||||||
|
Average |
4.15 |
8.70 |
11.65 |
19.57 |
9.89 |
7.60 |
6.96 |
14.20 |
|
Mimimum |
2.80 |
0.00 |
5.70 |
0.00 |
0.00 |
0.00 |
0.00 |
0.00 |
|
Maximum |
18.75 |
26.00 |
11.00 |
15.00 |
23.00 |
24.00 |
25.00 |
12.00 |
|
|
||||||||
|
Observed substitution statistics |
||||||||
|
Over all sites/sequences/pair-wise comparisions |
||||||||
|
No. of haplotypes |
5 |
18 |
6 |
36 |
39 |
28 |
10 |
|
|
Number of Average substitutions |
106.0+66.0 |
12.35+9.57 |
7.21+0.93 |
4.97+0.15 |
9.65+0.83 |
11.15+1.7 |
5.53+1.5 |
|
|
Nucleotide diversity (%) |
9.39+4.87 |
4.37+1.15 |
1.30+0.50 |
2.37+0.04 |
1.91+0.04 |
1.83+0.03 |
2.19+0.03 |
|
|
Ks (%) |
57.2+48.6 |
19.2+16.5 |
||||||
|
Ka (%) |
1.49+0.79 |
0.77+0.80 |
||||||
|
HW vs. GW and wolf/dog popun from elsewhere |
||||||||
|
Number of Average substitutions |
14.1+1.6 |
20.7+1.9 |
21.3+1.9 |
7.1+1.6 |
||||
|
Miminum-maximum substitutions |
11-16 |
17-24 |
18-25 |
5-9 |
||||
|
Median (Mode) substitutions |
14 (16) |
20 (19) |
21 (21) |
7 (7) |
||||
|
GW vs. HW and wolf/dog popun from elsewhere |
||||||||
|
Number of Average substitutions |
13.4+1.3 |
17.3+1.6 |
18.0+2.0 |
5.1+1.6 |
||||
|
Miminum-maximum substitutions |
10-17 |
14-21 |
14-21 |
4-9 |
||||
|
Median (Mode) substitutions |
13 (13) |
17 (17) |
18 (19) |
5 (4) |
||||
|
Between different wolf/dog popun excluding HW/GW from India |
||||||||
|
Number of Average substitutions |
4.5+2.23 |
7.4+3.2 |
7.6+3.4 |
3.1+1.3 |
||||
|
Miminum-maximum substitutions |
0-10 |
0-15 |
0-15 |
0-5 |
||||
|
Median (Mode) substitutions |
4 (4) |
8 (7) |
8 (7) |
3 (3) |
||||
|
|
||||||||
|
Aggarwal et al. Genome Biology 2003 4:P6 doi:10.1186/gb-2003-4-6-p6 |
||||||||