Table 3

Number of SNPs shared and differential between groups
Piel de Sapo Inodorus Melo Cantalupensis Momordica Conomon Agrestis acidulus African agrestis
Pool8 Pool7 Pool6 Pool5 Pool4 Pool3 Pool2 Pool1
Piel de Sapo 15,560 9,149 19,451 21,566 14,168 14,488 18,172
Pool8 (36/20) (21/22) (45/19) (50/16) (33/17) (33/15) (42/16)
inodorus 1,564 16,255 33,966 40,668 25,165 26,914 32,236
Pool7 (20/40) (43/33) (51/31) (32/31) (34/28) (41/26)
melo 3, 260 2,722 19,727 23488 13,541 15,589 17,157
Pool6 (19/48) (58/18) (33/17) (38/16) (42/15)
cantalupensis 4,735 4,353 3, 178 52,514 31,461 34,510 39,016
Pool5 (51/40) (31/39) (34/36) (38/33)
momordica 4,441 4, 484 2, 417 4,224 38,384 47,491 46,865
Pool4 (47/29) (49/36) (40/35)
conomon 19,942 20,281 12,628 14,978 9,576 27,670 33,783
Pool3 (29/34) (35/29)
agrestis-acidulus 11,402 12,009 6,837 9,577 5,273 6,474 36,162
Pool2 (44/31)
Africanagrestis 20,501 20,931 14,132 18,294 13, 070 21,490 11,180
Pool1

Numbers in the upper half of the table indicate the number of common SNPs between each pair of libraries. Numbers in brackets indicate percentages these common SNPs represent of the total SNP set detected within the corresponding library (row/column). For example, there are 15,560 SNPs common between pools 8 and 7 (that is with two alleles or more in each of these pools). This number represents the 36% and 20% of the total SNPs detected within Pool 8 and pool 7 (indicated in Table 2) respectively.

Numbers in the lower part of the table indicate the SNPs that are fixed within each pair of libraries, but polymorphic between them. For example, there are 1,564 SNPs for which all reads from pool 8 have one allele and all reads from pool 7 have the alternative allele.

Blanca et al.

Blanca et al. BMC Genomics 2012 13:280   doi:10.1186/1471-2164-13-280

Open Data