High recombination rates and hotspots in a Plasmodium falciparum genetic cross

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

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

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.

ISSN: 1474-760X