Table 1. Marker information for markers used in the genomic and locus scans.

Name	Chr	Position (cM)	Heterozygosity (%)	No. of alleles	Min allele size (bp)	Max allele size (bp)	Unamplified alleles detected	Annealing temp & PCR conditionsb	Typec	Companion Markers	Chr location of companion markers
BM6438	1	1.6	55	4	256	268	NO	56	SINGLE
BMS1928	1	6.9	81	15	138	174	NO	58	DOUBLE	UWCA46	1
BMS2321	1	14	69	7	138	152	NO	58	DOUBLE	BMS527	1
BMS4015	1	28.2	75	9	134	158	NO	58	DOUBLE	BMS8246	1
BMS4017	1	34.8	85	7	147	163	NO	58	DOUBLE	BMS527	1
TGLA57	1	46.2	75	7	86	102	NO	58	SINGLE
BMS527	1	55.9	87	11	165	187	NO	58	DOUBLE	BMS2321	1
BM9019	1	67.5	65	5	91	115	NO	58	DOUBLE	BMS4002	1
BM8246	1	76.2	79	8	167	191	NO	60	SINGLE
URB038	1	80.6	87	8	155	173	NO	60	DOUBLE	CSSM19	1
BMS1170	1	92.8	78	8	214	228	NO	58	SINGLE
BMS1789	1	100.9	83	7	103	121	NO	58	SINGLE
CSSM19	1	108.3	82	6	141	155	NO	56	DOUBLE	URB038	1
UWCA46	1	113.8	93	9	120	150	NO	58	DOUBLE	BMS4002	1
BMS599	1	125.8	84	12	112	154	NO	58	DOUBLE	BMS4014	1
BMS4014	1	135.5	74	6	77	87	NO	56	DOUBLE	BMS599	1
URB014	1	142.1	73	6	115	125	NO	60	DOUBLE	SRC40	7
TGLA44	2	0.8	91	11	136	170	NO	58	DOUBLE	TEXAN4	2
INRA040	2	7.5	89	24	161	240	NO	58	SINGLE
TEXAN2	2	22.5	66	4	116	122	NO	58	DOUBLE	BMS803	2
SRC23	2	29.1	85	10	136	166	NO	58	DOUBLE	TEXAN1	2
BMS803	2	41	76	6	134	146	NO	58	DOUBLE	TEXAN2	2
BMS1300	2	46.6	32	4	163	169	NO	58	DOUBLE	IDVGA-2	2
BMS1126	2	56.3	81	10	122	156	NO	58	DOUBLE	BMS2519	2
TEXAN1	2	68.7	74	7	118	136	NO	58	DOUBLE	SRC23	2
TGLA226	2	80	70	4	141	147	NO	58	DOUBLE	INRA40	2
TEXAN4	2	88.4	75	7	110	136	NO	58	DOUBLE	TGLA44	2
BMS2519	2	101.5	69	8	101	127	NO	58	DOUBLE	BMS1126	2
BM2113	2	106.2	89	7	125	139	NO	58 END-LABEL	DOUBLE		2
IDVGA-2	2	117.8	73	9	119	147	NO	56 2XPRIMER	DOUBLE	BMS1300	2
BMS871	3	0	60	3	103	113	NO	58	DUPLEX	BMS937	3
INRA006	3	19.5	59	4	106	114	NO	58	DUPLEX	BMS2145	3
ILSTS096	3	29.7	69	7	192	204	NO	58	DUPLEX	IDVGA-35	3
BMS482	3	36.2	77	9	137	157	NO	58	SINGLE
BL41	3	45.2	66	7	236	250	NO	58	SINGLE
BM4129	3	52.3	51	8	78	102	NO	54	DOUBLE	BMS896	3
INRA003	3	59.5	63	7	166	180	NO	58 END-LABEL	DOUBLE	BM862	3
BMS937	3	67.9	59	6	133	149	NO	58	DUPLEX	BMS871	3
ILSTS064	3	77.9	87	13	142	172	NO	54	SINGLE		3
TGLA76	3	82.7	67	6	124	136	NO	54	DOUBLE	INRA003	3
BMS2145	3	93.9	54	7	148	164	NO	58	DUPLEX	INRA006	3
IDVGA-35	3	102.9	87	12	221	247	NO	58	DUPLEX	ILSTSO96	3
BMS896	3	114.9	66	5	130	140	NO	56	DOUBLE	BM4129	3
Namea	Chr	Position (cM)	Heterozygosity (%)	No. of alleles	Min allele size (bp)	Max allele size (bp)	Unamplified alleles detected	Annealing temp & PCR conditionsb	Typec	Companion Markers	Chr location of companion markers
BMC4214	3	123	73	11	172	196	NO	56	DOUBLE	ILSTS064	3
BMC1410	4	0	77	4	202	224	NO	58	DUPLEX	BMS1237	4
BMS1788	4	8.4	80	11	89	115	NO	58	DOUBLE	INRA072	4
BMS827	4	24.7	62	4	102	108	NO	58	DOUBLE	RM088	4
BMS1237	4	30.6	87	18	140	184	NO	58	DUPLEX	BMC1410	4
BMS1840	4	41.7	76	7	165	187	NO	58	DUPLEX	BMS1074	4
BMS2172	4	49.6	68	8	78	96	NO	56	DUPLEX	BM1500	4
INRA072	4	59.3	70	9	112	130	NO	58	DOUBLE	BMS1788	4
ILSTS062	4	68.3	73	7	188	206	NO	58	DUPLEX	AGLA227B	4
BMS1074	4	74.9	77	4	141	157	NO	58	DUPLEX	BMS1840	4
BM1500	4	82.8	59	4	135	145	NO	54	SINGLE
RM088	4	94.8	47	7	128	150	NO	54	DOUBLE	BMS827	4
AGLA227B	4	101.5	35	3	171	177	NO	58	DUPLEX	ILSTS062	4
BMS1095	5	0	81	11	95	117	NO	56	DUPLEX	BR2936	5
BMS610	5	12.8	78	10	108	126	NO	54	DOUBLE	BL4	5
BP1	5	18.8	77	11	302	326	YES	54	DUPLEX	AGLA293	5
RM103	5	28.6	79	8	114	134	NO	58	DOUBLE	BMS1315	5
AGLA293	5	32	48	7	237	257	NO	54	DUPLEX	BP1	5
BMS1315	5	32.5	61	6	133	145	NO	58	DOUBLE	RM103	5
BM321	5	38	44	5	110	126	NO	58	DOUBLE	RM084	5
BMC1009	5	40.6	71	7	265	285	NO	58 END-LABEL	SINGLE
BMS1898	5	44.1	71	8	92	112	NO	58	SINGLE
BL4	5	51.2	78	7	149	161	NO	54	DOUBLE	BMS610	5
RM084	5	55.8	76	8	128	142	NO	58 END-LABEL	DOUBLE	BM321	5
BR2936	5	64.3	70	5	140	152	NO	58	SINGLE
BMS1216	5	75.6	71	7	139	167	NO	58	DOUBLE	BMS597	5
BMS1248	5	88.4	74	13	122	162	NO	58	DUPLEX	BMC1009	5
BM315	5	100.1	89	13	107	135	NO	60	SINGLE
BM2830	5	113.5	89	14	151	179	NO	58	DUPLEX	BM8126	5
BMS597	5	120	58	4	128	136	NO	60	DOUBLE	BMS1216	5
BM8126	5	122.1	34	2	127	129	NO	58	DUPLEX	BM2830	5
ILSTS093	6	0	70	10	182	201	NO	58 END-LABEL	DOUBLE	ILSTS035	6
ILSTS090	6	11.8	54	2	145	147	NO	56	DUPLEX	BMS2508	6
BM1329	6	35.5	66	6	145	155	NO	58	TRIPLE	RM216; BM8124	9&6
BMS2508	6	44.2	77	7	97	111	NO	56	DUPLEX	ILSTS090	6
BMS518	6	55.2	75	4	147	159	NO	58	DUPLEX	BM8124	6
BMS470	6	63.6	73	6	59	71	NO	58	DUPLEX	BMS2251	9
BM4621	6	72.3	42	5	139	155	NO	56	DUPLEX	BMS2460	6
ILSTS035	6	81	72	17	210	266	NO	56	DOUBLE	ILSTS093	6
BMS2460	6	86.2	69	5	67	83	NO	56	DUPLEX	BM4621	6
BM8124	6	94.2	42	9	121	139	NO	58	TRIPLE	RM216; BM1329	9&6
BMC4203	6	112.9	57	6	150	166	NO	58	DUPLEX	BL1038	6
BL1038	6	122.3	68	6	99	113	NO	60	DOUBLE	RM372	8
BM7160	7	0	67	6	175	189	NO	58	DOUBLE	BMS2840	7
RM012	7	7.9	10	2	106	108	NO	58	DOUBLE	IL4	7
Namea	Chr	Position (cM)	Heterozygosity (%)	No. of alleles	Min allele size (bp)	Max allele size (bp)	Unamplified alleles detected	Annealing temp & PCR conditionsb	Typec	Companion Markers	Chr location of companion markers
BMS713	7	15.2	73	7	129	157	NO	58	DOUBLE	BM741	7
IL4	7	30.5	61	6	87	99	NO	58	SINGLE
BM6105	7	35.7	77	8	89	103	NO	58	DOUBLE INRA192	INRA192	7
BM741	7	50.4	5	2	180	182	YES	54	DOUBLE	BMS713	7
BMS2840	7	64.3	89	17	217	283	NO	58	DOUBLE	BM7160	7
BM8129	7	69.6	0	1	132	132	NO	58	DUPLEX	BMS1591	8
INRA112	7	72.1	84	8	158	172	NO	58	DOUBLE	RASA	7
INRA192	7	82.4	67	4	124	134	NO	58	DOUBLE	BM6105	7
BMS1331	7	91.1	61	5	132	144	NO	52	DOUBLE	BMS2209	7
OARAE129	7	96.6	48	3	136	144	NO	56	DOUBLE	BL1043	7
BMS2209	7	103.1	75	12	97	125	NO	50 3mM MgCL	DOUBLE	BMS1331	7
RASA	7	103.1	56	4	181	187	NO	52	DOUBLE	INRA112	7
ILSTS006	7	116	81	10	281	299	NO	54	DOUBLE	BP41	7
BMS1979	7	124.4	67	9	93	111	NO	58	DOUBLE	UWCA20	7
BL1043	7	134.1	87	14	93	123	NO	58	DOUBLE	OARAE129	7
BMS1864	8	0	68	6	145	159	NO	58	DUPLEX	BMS1290	9
SRC276	8	14.4	65	6	181	195	NO	58	DUPLEX	BMS2629	8
BM1227	8	19.1	32	4	111	119	NO	58	DUPLEX	BMS2151	9
RM372	8	19.1	83	5	126	134	NO	58	DOUBLE	BL1038	6
BMS1591	8	28.1	78	8	78	108	NO	58	DOUBLE	MCM64	8
BMS678	8	38.4	80	7	97	111	NO	58	DUPLEX	SRC259	8
BMS1341	8	51.4	53	4	111	123	NO	56	DOUBLE	HEL9	8
BMS2072	8	58.8	81	8	152	168	NO	56	DOUBLE	BMS434	9
MCM64	8	62.7	76	8	144	180	NO	58	SINGLE
HEL9	8	76.7	80	9	147	165	NO	52	DOUBLE	BMS1341	8
SRC259	8	87.9	83	9	130	154	NO	58	DUPLEX	BMS678	8
BMS2847	8	112.2	82	10	205	223	NO	58	DOUBLE	ILSTS035	6
BMS2629	8	116.3	72	4	145	151	NO	58	DUPLEX	SRC276	8
BMS2151	9	0	74	8	127	145	NO	58	DUPLEX	BM1227	9
ETH225	9	8.1	75	7	141	153	NO	58	DUPLEX	BMS2295	9
RM216	9	32	90	10	96	118	NO	54	TRIPLE	BM8124; BM1329	6&6
BMS817	9	38	81	7	114	128	NO	58	DUPLEX	MCM64	8
TGLA261	9	44.6	88	15	255	283	NO	54	DOUBLE	BMS2874	8
BMS434	9	51.6	81	9	101	125	NO	56	DOUBLE	BMS2072	8
BMS1290	9	59	82	8	97	123	NO	58	DUPLEX	BMS1864	8
TGLA73	9	71.4	62	5	116	124	NO	58	DOUBLE	BMS1967	9
BMS2251	9	80.8	38	5	94	104	NO	58	DUPLEX	BMS470	6
BMS2295	9	91.5	81	6	110	128	NO	58	DUPLEX	ETH225	9
BMS1967	9	102.5	90	10	81	101	NO	58	DOUBLE	TGLA73	9
BM3033	10	0	41	2	104	106	NO	58	DUPLEX	BMS947	14
CSSM38	10	7	88	16	160	198	NO	58	DUPLEX	BMS2742	10
BMS2635	10	17.2	73	12	146	176	NO	54	SINGLE
BMS2349	10	22.1	79	14	68	110	NO	58	DUPLEX	INRA37	10
BRN	10	29.2	81	10	236	258	NO	58	DUPLEX	BM827	11
BMS2742	10	38.5	94	13	127	153	NO	58	DUPLEX	CSSM38	10
Namea	Chr	Position (cM)	Heterozygosity (%)	No. of alleles	Min allele size (bp)	Max allele size (bp)	Unamplified alleles detected	Annealing temp & PCR conditionsb	Typec	Companion Markers	Chr location of companion markers
BMS529	10	48.4	80	6	96	106	NO	56	DOUBLE	X67827	10
BMS419	10	51.1	75	13	140	186	NO	58	DUPLEX	SRC323	10
BR1603	10	59.3	80	6	123	133	NO	56	DOUBLE	ILSTS070	10
INRA071	10	59.3	85	11	209	229	NO	58	DUPLEX	BMS2641	10
INRA037	10	69.9	56	11	118	146	NO	58	DUPLEX	BMS2349	10
BMS1620	10	71.7	41	7	80	98	NO	58	SINGLE
ILSTS070	10	72.3	71	6	82	96	YES	56	DOUBLE	BR1603	10
X67827	10	72.3	38	4	103	109	NO	58	DOUBLE	BMS529	10
BMS2641	10	79.1	69	4	173	179	NO	58	DUPLEX	INRA071	10
TGLA272	10	86.8	44	6	131	151	NO	58	DOUBLE	BM6117	7
BMS614	10	89.5	84	9	131	153	NO	58	DOUBLE	BMS2635	10
SRC323	10	101.4	75	11	101	125	NO	58	DUPLEX	BMS419	10
BM827	11	0	14	4	208	216	NO	58	DUPLEX	BRN	10
BM9067	11	9.5	86	13	99	125	NO	46	DOUBLE	BMS989	11
BM2818	11	20.5	66	7	104	122	NO	56	DOUBLE	RM150	11
RM096	11	31.3	60	7	102	114	NO	56	DOUBLE	SRC146	12
BM7169	11	41	86	12	218	244	NO	58	DOUBLE	HEL13	11
BMS1716	11	47.7	75	6	183	213	NO	58	DUPLEX	ILSTS036	11
ILSTS036	11	56.9	74	7	147	159	NO	58	DUPLEX	BMS1716	11
RM150	11	65.5	94	14	143	169	NO	56	DOUBLE	BM2818	11
BMS2047	11	73.8	92	18	143	193	NO	58	DUPLEX	BL1103	11
BMS989	11	85.4	80	9	98	114	NO	58	DOUBLE	BM9067	11
BL1103	11	90.9	86	9	108	130	NO	58	DUPLEX	BMS2047	11
BMS460	11	102.6	77	7	118	142	NO	58	DOUBLE	INRABER162	11
INRABER162	11	102.6	55	8	93	109	NO	58	DOUBLE	BMS460	11
BMS607	11	105.3	82	10	133	167	NO	58	DUPLEX	BMS1350	11
HEL13	11	114.5	51	5	185	197	NO	52	DOUBLE	BM7169	11
BMS410	12	0	80	12	82	108	NO	58	TRIPLEX	BM9248; BMA9248	13,12
BMS2057	12	20.7	80	10	86	108	NO	58	DUPLEX	BMS2724	12
RM094	12	41.7	66	6	146	162	NO	58	DUPLEX	BMS1316	12
BMA9248	12	46.6	26	2	234	240	NO	58	TRIPLEX	BMS410; BM9248	12,13
BMS975	12	61.2	68	6	86	98	NO	58	DOUBLE	BM4028	12
BM4028	12	79.7	71	13	102	126	YES	58	DOUBLE	BMS975	12
BMS1316	12	98.7	83	11	96	126	NO	58	DUPLEX	RM094	12
BMS2724	12	105.8	54	6	129	139	NO	58	DOUBLE	BMS995	13
TGLA23	13	0	65	9	92	116	NO	58	DUPLEX	ILSTS059	13
BMS1742	13	14.8	66	5	157	167	NO	58	DUPLEX	BMS995	13
ILSTS059	13	34	83	13	162	200	NO	58	DUPLEX	TGLA23	13
BM9248	13	52.8	84	10	115	145	NO	58	TRIPLEX	BMS410; BMA9248	12,13
RM327	13	62.1	86	10	81	101	NO	56	DOUBLE	AGLA232	13
AGLA232	13	79.5	90	14	155	183	NO	54	DUPLEX	BM737	25
BMS995	13	84.1	80	6	118	134	NO	58	DOUBLE	BMS2724	12
BM1508	14	0	71	7	99	115	NO	56	DUPLEX	BMS1678	14
BMS1678	14	6.2	82	7	123	135	NO	56	DUPLEX	BM1508	14
RM011	14	27.7	86	8	101	121	NO	58	DUPLEX	BL1029	14
Namea	Chr	Position (cM)	Heterozygosity (%)	No. of alleles	Min allele size (bp)	Max allele size (bp)	Unamplified alleles detected	Annealing temp & PCR conditionsb	Typec	Companion Markers	Chr location of companion markers
BL1029	14	42.8	70	10	138	174	NO	58	DUPLEX	RM011	14
BMS947	14	52.8	78	11	112	136	NO	58	SINGLE
BM4305	14	66.4	86	8	150	168	NO	58	DUPLEX	BMS429	15
BMS2055	14	84.1	73	8	147	171	NO	58	DOUBLE	INRA050	15
MGTG13B	15	0	48	3	135	141	NO	58	DOUBLE	BMS2094	9
BMS2533	15	5.2	86	11	128	160	NO	56	SINGLE
JAB8	15	20.8	48	3	220	224	NO	56	DOUBLE	BMS2094	9
INRA050	15	31.1	79	8	132	152	NO	54	DOUBLE	BMS2055	14
BMS2684	15	34.9	70	9	80	110	NO	58	DUPLEX	MGTG13B	15
IDVGA-10	15	51.6	80	8	161	175	NO	56	DUPLEX	BMS812	15
BMS812	15	68.8	86	11	111	133	NO	56	DUPLEX	IDVGA-10	15
BMS820	15	81.6	80	9	106	134	NO	56	DUPLEX	SRC40	7
BMS429	15	93.4	73	7	125	143	NO	58	DUPLEX	BM4305	14
TGLA245	16	6.5	86	11	129	161	NO	56	DUPLEX	BMS601	19
BM121	16	24.4	60	12	118	158	NO	56	DUPLEX	TGLA227	18
BR6504	16	51.2	83	9	121	145	NO	56	SINGLE
INRA048	16	73	73	12	265	303	NO	58	DUPLEX	CSSM43	27
BM3509	16	84.5	95	25	96	158	NO	54	DUPLEX	BMC4216	25
BMS462	16	93.2	51	7	108	130	NO	58	DUPLEX	BMS2270	24
BMS1825	17	3.8	77	14	148	202	NO	58	SINGLE
VH98	17	12.8	78	10	141	163	NO	52	DOUBLE	MAF36	26
CSSM9	17	31.4	74	7	147	161	NO	60	SINGLE
BM305	17	51.9	85	14	101	135	NO	58	DUPLEX	BMS1355	18
HUJ223	17	74.8	57	6	150	168	NO	56	DUPLEX	BOLA-DRB1	23
BM1862	17	86.3	87	8	194	220	NO	56	DUPLEX	BM1233	17
BM1233	17	98.6	78	8	166	180	NO	58	DOUBLE	BMS2382	21
BMS1355	18	2.8	75	8	149	165	NO	58	DUPLEX	BM305	17
BR4206	18	8.8	53	7	104	118	NO	58	DUPLEX	BMS2526	24
BMS2213	18	26.2	74	9	130	146	NO	58	DUPLEX	BMS941	17
INRA185	18	42.3	55	3	137	143	NO	58	DUPLEX	BMS2639	18
BMS2639	18	57	90	9	157	185	NO	58	DUPLEX	INRA185	18
BM2078	18	77.8	68	11	92	114	NO	56	DUPLEX	BR6504	16
TGLA227	18	84.7	84	11	76	102	NO	56 2XPRIMER	DUPLEX	BM121	16
BM9202	19	0	73	8	85	115	NO	56	DUPLEX	BMS1926	24
HEL10	19	15.9	61	6	98	112	NO	58	DUPLEX	TGLA122	21
X82261	19	19.4	75	8	123	141	NO	58	DUPLEX	BMS2142	19
RM222	19	39.4	62	7	118	136	NO	56	SINGLE
BMS2142	19	44.7	71	9	87	113	NO	58	DUPLEX	X82261	19
BMS650	19	56.5	87	13	134	174	NO	60	DUPLEX	IDVGA-44	19
IDVGA-44	19	78.6	78	6	203	215	NO	60	DUPLEX	BMS650	19
BMS601	19	99.5	65	6	177	187	YES	56	DUPLEX	TGLA245	16
HEL12	20	0.7	69	7	145	163	NO	58	DUPLEX	BMS499	17
TGLA304	20	20	73	4	86	94	NO	56	DUPLEX	BM737	25
BMS1128	20	33.9	50	7	91	103	NO	58	DUPLEX	BM5004	20
BM4107	20	52.4	54	9	157	183	NO	58	DOUBLE	BMS641	27
Namea	Chr	Position (cM)	Heterozygosity (%)	No. of alleles	Min allele size (bp)	Max allele size (bp)	Unamplified alleles detected	Annealing temp & PCR conditionsb	Typec	Companion Markers	Chr location of companion markers
BM5004	20	64.3	86	10	120	148	NO	58	DUPLEX	BMS1128	20
BMS521	20	75	68	4	134	142	NO	58	DUPLEX	BMS2382	21
BM8115	21	0	83	9	119	139	NO	52	DUPLEX	MAF36	26
RM151	21	11.7	74	9	111	133	NO	54	SINGLE
BM103	21	30.5	72	9	146	162	NO	56	DUPLEX	TGLA325	30
BMS868	21	47.9	83	11	124	156	NO	58	DUPLEX	BMS1616	30
TGLA122	21	67.3	86	12	141	181	NO	58	DUPLEX	HEL10	19
OY3	21	83.2	39	4	148	160	NO	50	DOUBLE	BMS66	24
BMS2382	21	87.6	5	3	183	187	NO	58	DOUBLE	BMS2724	12
CSSM26	22	0	83	11	238	276	NO	58	DUPLEX	BL1098	30
INRA194	22	21.8	66	5	145	165	NO	56	SINGLE
BMS2573	22	40.4	75	7	117	131	NO	58	TRIPLEX	BMS875; RME40	22,26
BMS875	22	61.1	53	5	97	105	NO	58	TRIPLEX	BMS2573; RME40	22,26
BM4102	22	81.1	71	5	137	173	NO	58	DUPLEX	BMS2382	21
INRA064	23	0	58	7	177	186	NO	58	DOUBLE	BM1233	17
BM47	23	9.1	75	9	96	126	NO	56 END-LABEL	SINGLE
RM033	23	17.3	64	4	150	156	NO	58	DOUBLE	BMS2382	21
UWCA1	23	22.1	73	7	108	120	NO	58	SINGLE
BOLA-DRB1	23	35.4	85	9	208	229	NO	56	DUPLEX	HUJ223	17
BM7233	23	49.1	80	6	104	124	NO	56	DUPLEX	BM1443	23
BM1443	23	67.1	88	9	145	165	NO	56	DUPLEX	BM7233	23
BL6	24	0	34	5	149	163	NO	54	DUPLEX	AGLA257	30
BMS2526	24	6	86	9	139	155	NO	58	DUPLEX	BR4206	18
BMS2270	24	21.2	70	9	78	96	NO	58	DUPLEX	BMS462	16
BMS66	24	38.2	72	7	132	146	NO	60	DOUBLE	OY3	21
BMS1926	24	57.4	75	7	124	146	NO	56	DUPLEX	BM9202	19
BMC4216	25	0	51	3	163	167	NO	54	DUPLEX	BM3509	16
BM4005	25	12.3	80	9	102	122	NO	58	DOUBLE	RM404	25
BMS130	25	12.3	52	6	146	234	NO	58	SINGLE
BM737	25	27.8	79	10	110	134	NO	52	DOUBLE	AF5(L6038)	25
BMS1353	25	45.3	70	10	100	128	NO	58	DUPLEX	BMS1743	24
AF5(L6038)	25	60.6	77	10	132	156	NO	56	DOUBLE	BM737	25
BM1864	25	64.9	62	5	125	142	NO	56	DUPLEX	ILSTS081	29
BMS651	26	2.5	89	8	117	133	NO	58	DOUBLE	ILSTS072	20
HEL11	26	20.7	81	12	181	211	NO	58	DUPLEX	BM804	26
RME40	26	41.3	87	14	145	189	NO	58	TRIPLEX	BMS875; BMS2573	22,22
BM804	26	59.6	67	6	142	152	NO	58	DUPLEX	HEL11	26
BM7237	26	64.3	54	5	94	102	NO	56	DUPLEX	BMC2208	28
MAF36	26	72.6	51	4	151	157	NO	54	SINGLE
BM3507	27	0	84	9	161	185	NO	58	DUPLEX	INRA134	27
BMS641	27	14.3	89	10	82	104	NO	58	DOUBLE	BM4107	20
CSSM43	27	34.1	76	9	249	265	NO	58	DUPLEX	INRA048	16
INRA134	27	45.5	60	7	123	143	NO	58	DUPLEX	BMS2798	30
BM203	27	64.1	71	14	203	231	NO	58	DUPLEX	INRA048	16
BMS2060	28	0	49	6	87	99	NO	58	DUPLEX	AF5(L6038)	25
Namea	Chr	Position (cM)	Heterozygosity (%)	No. of alleles	Min allele size (bp)	Max allele size (bp)	Unamplified alleles detected	Annealing temp & PCR conditionsb	Typec	Companion Markers	Chr location of companion markers
IDVGA-29	28	8.7	73	7	136	152	NO	56	DUPLEX	BM47	23
BMS510	28	22.1	86	10	83	107	NO	58	DUPLEX	RBP3	28
BMS1714	28	42.1	54	7	121	139	NO	58	DUPLEX	BMS2060	28
BMC2208	28	52.4	31	4	143	151	NO	56	DUPLEX	BM7237	26
RBP3	28	52.4	22	4	132	142	NO	58	DUPLEX	BMS510	28
BM4602	29	0	82	10	112	144	NO	58	DUPLEX	BL1100	29
BMS764	29	9.7	75	7	94	108	NO	58	DUPLEX	BMS1600	29
BMS1600	29	28.4	56	5	139	153	NO	58	DUPLEX	BMS764	29
BL1100	29	46.6	64	5	77	85	NO	58	DUPLEX	BM4602	29
ILSTS081	29	65	84	9	88	114	NO	56	DUPLEX	BM1864	25
BMS631	X	0		4	133	139		58	DUPLEX	BMS911	30
BM6017	X	4.7		11	117	143		58	DUPLEX	BMS2798	30
URB010	X	25.5		6	192	202		54	SINGLE
BMS1616	X	45.9		7	93	107		58	DUPLEX	BMS868	21
BL1098	X	52.8		6	201	217		58	DUPLEX	CSSM26	22
ILSTS017	X	73.5		7	115	129		58	DUPLEX	BMC6021	30
BMC6021	X	91.3		5	139	159		58	DUPLEX	ILSTS017	30
BMS2798	X	104.3		6	169	179		58	DOUBLE	INRA132	23
TGLA325	X	119.5	62	10	96	122		56	DUPLEX	BM103	21
BMS911	X	136.2		7	94	116		58	DUPLEX	BMS631	30
XBM16	X	143.9		9	140	160		56	DUPLEX	URB010	30
XBM451	X	150.5	72	5	106	120		58	DUPLEX	AF5(L6038)	25

aMarkers listed in bold were only used in the secondary scan and not in the genomic scan.
bThe standard PCR mix and thermocycling protocol was the same as Kappes et al. (1997) except where the primer concentration or MgCL concentration was indicated. All reactions were labeled by random incorporation except for the 6 markers that were end-labeled, as indicated.
cTriplexed and duplexed markers were ran in the same PCR reaction. Triple and double loaded markers were amplified in separate PCR reactions but load on the same polyacrylamide gel.