The following statistics are computed using only female FG, FF, and GG samples.
606191
Number of high confidence sanger SNPs on X informative between F (CAST) and G (PWK)
24381 24208
Number of X SNP positions with pileup heights > 50 reads in all 6 FG F1s
21175 21066
Number of X SNP positions with pileup heights > 50 reads in all 6 F inbred samples (Note: there is one bad F sample)
30454 30266
Number of X SNP positions with pileup heights > 50 reads in all 6 G inbred samples
11342 11266
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in F inbred samples
16265 16127
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in G inbred samples
1706 1643
Intersection of SNP positions common to FG, F, and G with > 50 reads and having consistent F and G genotypes within coresponding inbreds
Allelic ratio at informative SNP positions with pileups > 50 (2438124208) Allelic ratio at subset of SNP positions with consistent inbred genotypes (1706 1643)
Is there an X-inactivation escapee around 135 Mb?
The following statistics are computed using only female GF, FF, and GG samples.
606191
Number of high confidence sanger SNPs on X informative between G (PWK) and F (CAST)
30452 30265
Number of X SNP positions with pileup heights > 50 reads in all 6 GF F1s
30454 30266
Number of X SNP positions with pileup heights > 50 reads in all 6 G inbred samples
21175 21066
Number of X SNP positions with pileup heights > 50 reads in all 6 F inbred samples (Note: there is one bad F sample)
15592 15458
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in G inbred samples
11786 11710
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in F inbred samples
1720 1668
Intersection of SNP positions common to GF, G, and F with > 50 reads and having consistent G and F genotypes within coresponding inbreds
Allelic ratio at informative SNP positions with pileups > 50 (30452 30265) Allelic ratio at subset of SNP positions with consistent inbred genotypes (1720 1668)
Note: Sample GF_0169 appears "male-like".
The following statistics are computed using only female FH, FF, and HH samples.
502333
Number of high confidence sanger SNPs on X informative between F (CAST) and H (WSB)
20750 20660
Number of X SNP positions with pileup heights > 50 reads in all 6 FH F1s
19793 19719
Number of X SNP positions with pileup heights > 50 reads in all 6 F inbred samples (Note: there is one bad F sample)
26762 26650
Number of X SNP positions with pileup heights > 50 reads in all 6 H inbred samples
10577 10523
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in F inbred samples
14182 14103
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in H inbred samples
1474 1444
Intersection of SNP positions common to FH, F, and H with > 50 reads and having consistent F and H genotypes within coresponding inbreds
Allelic ratio at informative SNP positions with pileups > 50 (20750 20660)
Allelic ratio at subset of SNP positions with consistent inbred genotypes (1474 1444)
The following statistics are computed using only female HF, HH, and FF samples.
502333
Number of high confidence sanger SNPs on X informative between H (WSB) and F (CAST)
23040 22931
Number of X SNP positions with pileup heights > 50 reads in all 6 HF F1s
26762 26650
Number of X SNP positions with pileup heights > 50 reads in all 6 H inbred samples
19793 19719
Number of X SNP positions with pileup heights > 50 reads in all 6 F inbred samples (Note: there is one bad F sample)
13602 13523
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in H inbred samples
11034 10980
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in F inbred samples
1532 1502
Intersection of SNP positions common to HF, H, and F with > 50 reads and having consistent H and F genotypes within coresponding inbreds
Allelic ratio at informative SNP positions with pileups > 50 (23040 22931)
Allelic ratio at subset of SNP positions with consistent inbred genotypes (1532 1502)
The following statistics are computed using only female GH, GG, and HH samples.
656999
Number of high confidence sanger SNPs on X informative between G (PWK) and H (WSB)
36941 36688
Number of X SNP positions with pileup heights > 50 reads in all 6 GH F1s
33169 32923
Number of X SNP positions with pileup heights > 50 reads in all 6 G inbred samples
31054 30828
Number of X SNP positions with pileup heights > 50 reads in all 6 H inbred samples
17370 17207
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in G inbred samples
16912 16751
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in H inbred samples
2317 2230
Intersection of SNP positions common to GH, G, and H with > 50 reads and having consistent G and H genotypes within coresponding inbreds
Allelic ratio at informative SNP positions with pileups > 50 (36941 36688)
Allelic ratio at subset of SNP positions with consistent inbred genotypes (2317 2230)
The following statistics are computed using only female HG, HH, and GG samples.
656999
Number of high confidence sanger SNPs on X informative between H (WSB) and G (PWK)
18581 18460
Number of X SNP positions with pileup heights > 50 reads in all 6 HG F1s
31054 30828
Number of X SNP positions with pileup heights > 50 reads in all 6 H inbred samples
33169 32923
Number of X SNP positions with pileup heights > 50 reads in all 6 G inbred samples
16307 16146
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in H inbred samples
18033 17866
Number of X SNP positions with consistent genotypes (> 75% in 4 or more samples) in G inbred samples
1689 1636
Intersection of SNP positions common to HG, H, and G with > 50 reads and having consistent H and G genotypes within coresponding inbreds
Allelic ratio at informative SNP positions with pileups > 50 (18581 18460)
Allelic ratio at subset of SNP positions with consistent inbred genotypes (1689 1636)