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Table 1 Microarray probes and genotype calls from GB4 and 7G8 comparing with those of 3D7

From: High recombination rates and hotspots in a Plasmodium falciparum genetic cross

Chr. Total 0_0 1_1 0_1 1_0 Diff SFP Diff mSFP % Diff 7G8/GB4 Corrected mSFP Number of MS
1 30,929 30,430 116 118 265 383 101 1.2 2.2 79 12
2 53,535 52,460 388 155 532 687 191 1.3 3.4 150 14
3 67,398 66,136 433 320 509 829 234 1.2 1.6 179 16
4 61,039 59,470 544 395 630 1,025 280 1.7 1.6 217 19
5 90,671 89,336 431 328 576 904 244 1.0 1.8 194 17
6 85,948 84,711 420 259 558 817 227 1.0 2.2 169 17
7 84,732 83,082 442 424 784 1,208 329 1.4 1.8 249 13
8 86,613 85,119 543 289 662 951 255 1.1 2.3 215 11
9 99,923 98,407 460 298 758 1,056 289 1.1 2.5 227 19
10 189,885 187,180 811 491 1,403 1,894 386 1.0 2.9 274 17
11 224,234 221,693 948 600 993 1,593 385 0.7 1.7 195 20
12 208,959 206,503 993 464 999 1,463 342 0.7 2.2 228 25
13 343,063 338,735 1,487 918 1,923 2,841 547 0.8 2.1 384 21
14 231,652 228,725 1,014 613 1,300 1,913 525 0.8 2.1 424 33
Total 1,858,581 1,831,987 9,030 5,672 11,892 17,564 4,335 1.1 2.2 3,184 254
  1. Chr., chromosome; Total, total numbers of probes on each chromosome; 0_0, numbers of probes calling the same alleles as those of 3D7; 1_1, numbers of probes calling alleles different from 3D7 in both GB4 and 7G8; 0_1, numbers of probes calling GB4 unique alleles; 1_0, numbers of probes calling 7G8 unique alleles; Diff SFP, numbers of differential probes from both1_0 and 0_1; Diff mSFP, multiple-probe SFPs collapsed within 25 bp and excluded calls from subtelomeric regions and those in multigene families; % Diff, percentage of Diff SFP probes divided by the total number of probes; 7G8/GB4, the ratio of unique 7G8 probes over those of GB4; Corrected mSFP, numbers of mSFPs after removing false calls (see Materials and methods for details); Number of MS, number of microsatellites used in this study.