MICROSATELLITE SCREENING PANEL FOR THE ASSIGNMENT OF
TRAITS TO HORSE CHROMOSOMES
Cecilia Penedo
Veterinary Genetics Laboratory
School of Veterinary Medicine
University of California, Davis
2
Details for Genome Scan Panel:
PCR amplification: The 12.5 μl total volume reaction consisted of 1 μl or hair root
extract, 1X PCR buffer (Perkin Elmer, Foster City, CA), 2.5mM MgCl2, 200μM of each dNTP,
between 0.1 and 0.5μM of each primer (see Table 1) and 0.5U Taq Polymerase (Perkin Elmer,
Foster City, CA). PCR was performed in PTC-100 thermal cyclers (MJ Research, Watertown,
MA) using a hot start protocol. DNA template and primers were combined and heated at 95ºC
for 5 minutes for initial denaturation after which the temperature was lowered to 85ºC for
addition of the remaining reagents. The following amplification protocol was used: 90ºC for 60s,
56-60ºC annealing temperature (see Table 1) for 30s, 72ºC for 30s, repeated for 30 cycles and a
final extension of 72˚ for 30min.
For PCR amplification of markers contained in multiplex sets 16-44, an M13-tailing
protocol (Tozaki et al. 2001) was used in which unlabelled forward primers were synthesized
with an 18-20mer oligonucleotide tail. Fluorescence-labelled tails were also synthesized and
included in the standard PCR reaction. The 3 different tails used were:
M13_FAM: TTTCCCAGTCACGACGTTG
M13_VIC: GCGGATAACAATTTCACACAGG
M13_NED: TAAAACGACGGCCAGTGC
In some instances, the products of some multiplexes were combined post-PCR for
separation on ABI 377 or ABI 3730 DNA Sequencers (PE Applied Biosystems, Foster City,
CA). Multiplexes labeled with suffix A and B indicate reactions that are combined postPCR. Fragment sizes of microsatellite alleles were determined using STRand software (Hughes
2000).
Genetic variability of loci: To characterize the polymorphism of new microsatellites
chosen for the second generation genome scan panel, allelic frequencies, number of alleles and
polymorphism information content (PIC) values were obtained by screening a panel of 24
unrelated Quarter Horses.
References:
Tozaki T., Mashima S, Hirota K et al. Characterization of equine microsatellites and
microsatellite-linked repetitive elements (eMLREs) by efficient cloning and genotyping
methods. DNA Research 8(1):33-45, 2001.
Penedo MCT, Millon LV, Bernoco D et al. International Equine Gene Mapping Workshop
Report: A comprehensive linkage map constructed with data from new markers and by
merging four mapping resources. Cytogenetics and Genome Research 111:5-15 (2005)
3
Table 1. Horse genome scan panel with 316 microsatellites.
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
1
2
ASB17
17
93-125 0.86 6FAM
58
0.05
GAGGGCGGTACCTTTGTACC
Abdtail(7)ACCAGTCAGGATCTCCACCG
1
1
ASB41
6
156-168 0.69 NED
58
0.35
AAAGTTCACTTAGTCCTTGG
Abdtail(7)CCACCTGTTTGCACTTGC
1
3
COR028
7
230-244 0.69 6FAM
58
0.45
TAAAGAGGAAGGCAATGGAC
ACCTTTTGTGCTAGGCACTG
1
4
COR089
10
282-304 0.79 NED
58
0.25
CCTGCCATAAATTTGTTTCC
Abdtail(7)TCCCTACCTCATCTCCACAC
1
1
NVHEQ100
7
197-217 0.67 6FAM
58
0.12
CCAAAGCAGAACATGTGAAGTT
Abdtail(7)TGGCATAGATGTTAGCTCAGTGA
1
20
TKY321
8
95-117 0.83 NED
58
0.10
CACTGTGTAACACTAACACC
TGTGACTTCAAGAACAGACG
1
2
UM007
18
122-176 0.68
VIC
58
0.16
GGGAATAGAGAAAGGTGAAG
TTAGAGTTCCTGCTCCTCC
2
2
A-14
10
220-248 0.62
VIC
58
0.12
CAGCTGGGTGACACAGAGAG
Abdtail(7)GTCATCACTACTCCCTACAC
2
8
ASB14
9
118-136 0.54 6FAM
58
0.08
CTCCATGAATTCTCGCAGGTTGG
Abdtail(7)CCATGGGCCATATGCACACTGC
2
21
COR073
8
184-200 0.76 6FAM
58
0.10
GCCAAGACATGGAAACAATC
Abdtail(7)GTTCTCAAGGTGCATCCCTA
2
2
COR090
9
81-105 0.63 NED
58
0.10
GGTTTGTCTCTTTGAGGTGTG
TGCTCATATCTTCACCCTGC
2
5
LEX034
7
248-262 0.70 NED
58
0.15
GCGGAGGTAAGAAGTGGTAG
Abdtail(7)GGCCTAAGATGAGGGTGAA
2
5
LEX069
7
142-170 0.78 NED
58
0.35
TTTCTTTTTCCCACTTAAAGC
Abdtail(7)TGGGACTTAGCAGTATGAAAC
2
6
NVHEQ82
6
133-147 0.65
VIC
58
0.07
TGTGGCAGCATCCCACAAAC
Abdtail(7)CCTCCATTTTTGTCGGTTAGCG
2
20
LEX52
7
201-207 0.72
VIC
58
0.10
GGAACGGAAGAGTGTAGTTTT
CATTTATTCATCAGCGATTTG
2
X
LEX28
3
268-281 0.77
VIC
58
0.20
AACTGGGGATCACAACACAT
TTGGTACAGGAGCGTCTCTT
2
6
COR088
7
276-290 0.63 NED
58
0.10
GAGCCAGCTTGTCGTGTATT
GCACGAAGAAGAACCAAAGA
3
1
ASB8
8
138-164 0.73
VIC
58
0.08
GACAACGTGGCAGCTCACTGCC
Abdtail(7)GCAAGTAAGCCATATGTGCATGCG
3
9
COR008
12
251-277 0.69 NED
58
0.10
TAAGTGCTGAGTCTGGGACC
Abdtail(7)TGGTAGATAGCGTCTGGAGG
3
10
COR020
7
162-176 0.76 NED
58
0.25
TCTCTACCGCAAGTGAAACC
Abdtail(7)CTGAATTGTAGGACATCCCG
3
8
COR056
10
194-220 0.70 6FAM
58
0.20
AGATTCCAGGCATTAGGACC
Abdtail(7)TCAGGGACAATCTTCCTCAAG
3
8
LEX023
12
233-257 0.76
VIC
58
0.15
GGATGAAACAGGGAAGGAAA
Abdtail(7)CCAACGGATTCATGAAAGCTA
3
11 UCDEQ457
9
VIC
58
0.10
GGGGCGTGAGCATAAAGG
CGCTGGATGAGTGAGGGA
3
9
7
58
0.25
TCATTTTATCCTCCACCTC
Abdtail(7)AAAAGGGCGTAATATGG
UM037
75-97
0.74
108-124 0.54 6FAM
4
MPX
Chr
Set
Marker
#Alleles
3
4
HTG9
5
3
13
ASB1
4
4
12
AHT17
4
4
4
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
120-130 0.41 NED
Reverse Primer*
58
0.08
TGTGGGAAGAGTGTCAATAGCTGT
AGGCATCTGGTTTGCTGCAATTTC
0.76 6FAM
58
0.03
AGCAGAAACCCACTCAAGCC
GCATAATACCCTCAAGGTC
11
123-147 0.86 6FAM
58
0.03
CCCCATAACCACAAGTGAGG
Abdtail(7)GAAGTGGGAGAGTCGGTAAGG
ASB22
9
155-177 0.77 NED
58
0.20
GAGGAATGTGAAATACAGGAGG
Abdtail(7)TTTGTGGTCTTCCGTGCACC
9
ASB5
7
105-117 0.68 NED
58
0.08
TCGAGGAGCTCATGACCTGG
TTGTACAACTCTCCACCATAGC
4
15
B-8
8
88-110 0.73 6FAM
58
0.08
TCCTCAGTCCTTTCTCATGC
Abdtail(7)AGCTGAAGGCAATCTGTACC
4
8
COR003
8
195-215 0.68 6FAM
58
0.06
TAGGGAAACTCCTCAAAGCC
Abdtail(7)GAAACCAAAACCTTCATCCA
4
12
COR058
12
218-244 0.83
VIC
58
0.10
GGGAAGGACGATGAGTGAC
Abdtail(7)CACCAGGCTAAGTAGCCAAAG
4
6
COR070
12
279-307 0.85 NED
58
0.30
CATCTGTTCCGTGGCATTA
Abdtail(7)TTCAGGTGTGGGTTTTGAATC
4
10
NVHEQ18
15
119-161 0.86
VIC
58
0.07
GGAGGAGACAGTGGCCCCAGTC
Abdtail(7)GCTGAGCTCTCCCATCCCATCG
5A
16
AHT37
6
204-220 0.39 NED
58
0.30
ATTTCACCCACTCCCAACC
TTTCGTTTGCGACAATATGG
5A
13
COR069
8
273-287 0.66 NED
58
0.35
AGCCACCAGTCTGTTCTCTG
Abdtail(7)AATGTCCTTTGGTGGATGAAC
5A
15
COR075
9
202-220 0.75 6FAM
58
0.08
GCCCTAGTTAGCAACCAACA
Abdtail(7)AAGATTGATTCCTCAGCACG
5A
16
I-18
9
93-119 0.73 6FAM
58
0.11
CAACAAAGATGTTGCAAGGG
Abdtail(7)TGTGCCTCTTGTCTCTTAGG
5A
14
LEX078
4
158-166 0.44 6FAM
58
0.12
AATGTGCGCATTTAACCACTGTG
CAAGCCATGCTGTGGAAACG
5A
13
VHL047
4
134-150 0.69
VIC
58
0.12
GTTTGCTGTGGTTACCAGGCAGA
Abdtail(7)GCAAATTGAATATTTGAAGTTGAGAC
5B
6
TKY312
7
102-124 0.83 NED
58
0.10
AACCTGGGTTTCTGTTGTTG
GATCCTTCTTTTTATGGCTG
5B
12
SGCV10
6
172-180 0.86 NED
58
0.80
CATCCATCCTTTCCAGCTCGATATTC CAAGACCGTAACTCAGGAGCCC
5B
17
LEX55
7
209-225 0.60
VIC
58
0.20
AGGGACACACAGGTGGTAG
TGGATTTCCACTGTTACTTAT
6
13
ASB37
6
132-146 0.76
VIC
58
0.08
CCTGCAACTTTTTCCCAGCC
Abdtail(7)GGCAGATGTTAGCTCATGGC
6
14
COR002
5
235-243 0.63
VIC
58
0.20
CTTGAGCACCCAGTAACACC
Abdtail(7)CCAGGAATCTTCTCTACCGA
6
17
COR032
4
249-255 0.35 6FAM
58
0.08
GCCCTCTTAGAGCATTTTCC
CAGAGATGGCTGGAGTAAGG
6
18
COR096
8
315-329 0.68 NED
58
0.35
CCCCTCTTTTGCTTGAGAAT
Abdtail(7)GCGTGTATGTGAGGATTGAAG
6
18
LEX054
10
170-190 0.71 NED
58
0.35
TGCATGAGCCAATTCCTTAT
Abdtail(7)TGGACAGATGACAGCAGTTC
6
17
NVHEQ79
7
175-197 0.57 6FAM
58
0.10
ATTGCCTGTGCTGAGATGG
Abdtail(7)GCAAATTGCCTCTGTATCACAC
6
14
UM010
7
112-126 0.69 6FAM
58
0.10
TACAGCCATTGGAAATCTAC
Abdtail(7)CACCATTACATTTTCCCAG
6
14
VHL209
6
91-105 0.41 6FAM
58
0.10
TCTTACATCCTTCCATTACAACTA
Abdtail(7)TGATACATATGTACGTGAAAGGAT
153
5
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
6
23
ASB39
5
156-172 0.68 FAM
58
0.25
ACAGCTGCCTGGATATGTGG
GCAGAGAGAAATAGAGATGC
6
5
LEX004
6
275-297 0.25 NED
58
0.35
AATAGCAAATCTCCCACTTCA
GTCCTCACAACCTCATCATCC
7
26
A-17
8
102-118 0.76 6FAM
58
0.08
GTGGAGAGATAAAAGAAGATCC
Abdtail(7)GGCCACAAGGAATGAACACAC
7
24
COR061
11
197-227 0.69 6FAM
58
0.08
TTAAGAGTGGCAGACCGACT
Abdtail(7)GAACGCTTCTTAAGTGGCAGA
7
22
HTG21
7
131-143 0.68
58
0.20
ATTACTTCCTCCAGGTATCTCAG
Abdtail(7)AGGCAGGGCTGGGAGACGT
7
21
LEX031
3
252-256 0.30 6FAM
58
0.12
CCCATTAAGAACTTTTCATCCTG
GGCAAGCCCCACAAAATTAT
7
19
LEX036
8
148-170 0.62 NED
58
0.10
ATCAGCCCAGCCTCTTCA
Abdtail(7)AACAACCGGCNAAATAGTGC
7
19
LEX073
11
249-277 0.79 NED
58
0.22
CCCTAGAGCCATCTCTTTACA
Abdtail(7)CAGATCCAGACTCAGGACAG
7
23
4
241-294 0.23
58
0.20
CGGGGTGTGCATCTCTTAGG
TGGCGAATGCTGAATCTGG
6
116-128 0.70 NED
58
0.16
F- ATTTGGGATGTCCTGAACAA
TGCATTCAGAGACTTTGTCA
CTGTGGCAGCTGTCATCTTGG
CCCAATTCCAGCCCAGCTTGC
7
7
7
7
23
7
19
19
LEX63
TKY269
SGCV28
ASB11
HMS8
HTG5
VIC
VIC
5
157
0.08
VIC
58
0.08
6
139
0.65 FAM
58
0.08
CCACCTATGTGTTCAGTTCACC
GCACCAATGTTTATAGACTCCC
209-215 0.65 NED
58
0.15
GGTGAGGAATTATCTCTTTGAAGG
GCAGGTAGGATTGGATAGGTACAT
0.81 NED
58
0.16
5
7
20
TGCTAAGCCTCAGCACATACA
TGGAAATAAGGTTAGCAGGGATGC
8
31
AHT33
8
151-167 0.74
VIC
58
0.15
CTGAGGGCGTAAGTCGAGTC
GTTAATAGGAGCGGTTGTTTGG
8
24
COR024
6
214-226 0.75
VIC
58
0.10
CAAAAGTGATTGCCTTCGAT
Abdtail(7)TTGGAAGCTGGGTGATTG
8
23
COR055
9
240-270 0.80 NED
58
0.15
TAGTGACGCCTACGGATTTC
Abdtail(7)CCCAAGAGGGCTTAGAAAGAG
8
19
COR092
6
191-203 0.67 6FAM
58
0.10
GGCAAGAGCCAGGTATTTTC
Abdtail(7)ACTGCTTGGACGAAACTGAG
8
16
TKY311
6
127-151 0.78 6FAM
58
0.15
CAAACAGGTCGCATCATTAG
CGCATCTCTGCTTTTCAGAG
8
25 UCDEQ464
5
93-105 0.53 6FAM
58
0.15
ATGCTCTGAGAATAAGTCTGG
AAAAGGCGAGAATGGAAT
8
24 UCDEQ467
11
82-110 0.47
VIC
58
0.06
CCCCGCAGCCAGCCTGTT
TTGTTCCCAGTGTAGGCACTCT
8
20
UM011
11
167-187 0.72 NED
58
0.12
TGAAAGTAGAAAGGGATGTGG
Abdtail(7)TCTCAGAGCAGAAGTCCCTG
9
25
COR018
7
251-283 0.51 NED
58
0.12
AGTCTGGCAATATTGAGGATGT
Abdtail(7)AGCAGCTACCCTTTGAATACTG
9
26
COR071
8
188-210 0.74 6FAM
58
0.08
CTTGGGCTACAACAGGGAATA
Abdtail(7)CTGCTATTTCAAACACTTGGA
9
25
COR080b
5
198-206 0.51 NED
58
0.15
CGTGCTGCCAGAGGTAAATA
TTGCTGCCCAATGTCTACAA
9
29
L12.2
10
136-156 0.76
58
0.15
TCACACGAAACCAGTCACGGGAG
Abdtail(7)ACAGACACTGCTGGAGTCTCATGG
9
30
LEX075
8
144-164 0.69 6FAM
58
0.15
TGAAAAGTTGCAGTTTGAGA
CAACCTCTTGCTACCAGAATA
7
79-95
VIC
6
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
9
25
NVHEQ43
10
142-168 0.73 NED
58
0.18
TGACACAAGATAAAAGCCCCAGG
Abdtail(7)GATTGGGAAAAGAGCACAGCC
9
25 UCDEQ405
8
247-273 0.66 6FAM
58
0.18
ACCTCGTCTGGCTGTTGTAAG
ACTTGCTGTGCGACTCTG
9
27
VHL150
5
94-102 0.50 6FAM
58
0.15
CTCCTATGGGTGTCAGAAAG
TGTAATCTGTGGGGGAGACT
10
27
COR017
12
241-267 0.74
VIC
58
0.18
GAAGGCCTGAAGCATTTACA
Abdtail(7)CGTAATGTTGACCAAACTTCA
10
27
COR031
7
210-224 0.76
VIC
58
0.10
CAATTGCCATTTGTTCCAGTG
Abdtail(7)GCTTAAGAAACACCAGGCAG
10
27
COR040
8
282-300 0.69 NED
58
0.35
GTGTTGGGACACGAATGAAT
Abdtail(7)AGGCTGTCTCCAGAGTCCTT
10
X
LEX022
7
110-124 0.65 6FAM
58
0.08
AACATATCCATCGCCTCACA
Abdtail(7)TGCAAATTCACTGAGAGTGG
10
30
LEX025
7
152-168 0.66
58
0.05
CAATCGTGGCCCGGTAAC
Abdtail(7)TTCACTCCAATCCTCAGTCA
10
26
NVHEQ70
7
192-208 0.66 6FAM
58
0.06
GCTGGTCAAGTCACACTGTG
Abdtail(7)AACCTCACCCCAAGTTGTAT
10
21
SGCV16
5
154-194 0.60 NED
58
0.16
AATTCTCAAATGGTTCAGTGA
Abdtail(7)CTCCCTCCCTTCCTTCTA
11A
24
AHT4
9
148-164 0.66 6FAM
60
0.06
AACCGCCTGAGCAAGGAAGT
GCTCCCAGAGAGTTTACCCT
11A
8
AHT5
9
128-146 0.74
VIC
60
0.07
ACGGACACATCCCTGCCTGC
GCAGGCTAAGGAGGCTCAGC
11A
3
ASB23
7
187-213 0.79
VIC
60
0.07
GAGGGCAGCAGGTTGGGAAGG
ACATCCTGGTCAAATCACAGTCC
11A
4
HMS6
6
159-169 0.61
VIC
60
0.12
GAAGCTGCCAGTATTCAACCATTG
CTCCATCTTGTGAAGTGTAACTCA
11A
1
HMS7
8
173-187 0.78 6FAM
60
0.10
CAGGAAACTCATGTTGATACCATC
TGTTGTTGAAACATACCTTGACTGT
11A
9
HTG4
7
129-141 0.60 6FAM
60
0.06
CTATCTCAGTCTTGATTGCAGGAC
CTCCCTCCCTCCCTCTGTTCTC
11A
30
VHL20
8
89-107 0.78 6FAM
60
0.14
CAAGTCCTCTTACTTGAAGACTAG
AACTCAGGGAGAATCTTCCTCA
11B
15
ASB2
11
222-254 0.82 6FAM
56
0.16
CACTAAGTGTCGTTTCAGAAGG
CACAACTGAGTTCTCTGATAGG
11B
9
HMS3
7
152-170 0.75 NED
56
0.15
CCAACTCTTTGTCACATAACAAGA
CCATCCTCACTTTTTCACTTTGTT
11B
21
HTG10
10
93-113 0.82 NED
56
0.20
CAATTCCCGCCCCACCCCCGGCA
TTTTTATTCTGATCTGTCACATTT
11B
X
LEX003
10
196-216 0.84 6FAM
56
0.12
ACATCTAACCAGTGCTGAGACT
AAGAACTAGAACCTACAACTAGG
11B
4
LEX033
11
195-221 0.77 NED
56
0.50
TTTAATCAAAGGATTCAGTTG
GGGACACTTTCTTTACTTTC
12A
26
EB2E8
5
144-158 0.42 NED
60
0.60
TGTGGAGAATGTCTGTCTCTGA
CAGATTGTGGAACTTTTCAACC
12A
1
HMS15
11
207-245 0.72 6FAM
60
0.18
AATGTGACACGTAAGATAGGCCTC ATATCTCTTGCTGTCCTACTTTCC
12A
5
HMS5
3
104-110 0.58 6FAM
60
0.12
TAGTGTATCCGTCAGAGTTCAAGG
GCAAGGAAGTCAGACTCCTGGA
12A
16
HTG3
6
115-129 0.70
VIC
60
0.15
TAACCTGGGTGCAAAGCCACCCAT
TCAGGGCCAATCTTCCTCAC
12A
15
HTG6
7
84-102 0.67
VIC
60
0.10
CCTGCTTGGAGGCTGTGATAAGAT
GTTCACTGAATGTCAAATTCTGCT
VIC
7
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
12A
4
HTG7
4
120-128 0.60 NED
60
0.08
CCTGAAGCAGAACATCCCTCCTTG
ATAAAGTGTCTGGGCAGAGCTGCT
12A
3
UCDEQ437
8
167-193 0.68 NED
60
0.30
CTGTTCTGGGCAGGCTTCTCTA
TTGCTGGCTTGGCTGGTC
12A
31
COR038
4
225-250 0.80
VIC
60
0.30
GCTGGAAAAGAGCAGTTTCA
TGACATTAACTCCCGCATCT
12B
28 UCDEQ425
8
236-250 0.67
VIC
56
0.40
AGCTGCCTCGTTAATTCA
CTCATGTCCGCTTGTCTC
12B
1
UCDEQ487
8
137-151 0.82 6FAM
56
0.08
CCCTGGGCGGTCACATGT
AACCTGCCTCCCTTGGGTCTC
13A
15
HMS1
7
173-189 0.67 NED
56
0.15
CATCACTCTTCATGTCTGCTTGG
TTGACATAAATGCTTATCCTATGGC
13A
X UCDEQ502
10
145-173 0.77 6FAM
56
0.14
CTTTGGGCTTTAGCAACT
CCATTGGAAACTGAGAGG
13B
3
LEX007
5
190-200 0.66 6FAM
58
0.16
GGTAGGGCTCTGGGATGA
AACACTGGGGGAAAAGTCAG
13B
15
AHT16
7
123-146 0.85
VIC
58
0.06
ATGTTGTGCAAATGGGATGA
TGCCCATTGATTGATGATTG
13B
16
LEX056
7
211-227 0.81
VIC
58
0.05
GACCTACAGGCCACTCATCAA
GGCAGTTTCCTCCATCCTTA
13C
15
ASB15
11
121-147 0.78 NED
60
0.50
GTCCCAAAGGGACTCAGGAAGG
TGGATGCCAGTGCATAGACAGG
13C
10
ASB9
8
90-106 0.75 6FAM
60
0.40
GTGCGCATGTATGTGCGTGCC
ATTTCCACAAGGGACATGAGG
13C
10
HMS2
9
284-304 0.73 6FAM
60
1.00
CAGTAAATCACAGGAACTAAT
ACTGCCAAGGAAGCCACTACA
14A
10
COR015
8
217-233 0.80 NED
56
0.08
GGTGTGGAAACATTCCGTAT
ACTGCATGTGTGGGAGAGAT
14A
29
COR027
7
241-255 0.70
VIC
56
0.30
CAGCTCTGCAATTTCTCCTC
Abdtail(7)AATGACCAAGGCATTGAAAG
14A
18
TKY19
9
147-173 0.68 NED
56
0.18
CTTCTGCTGATTCCTGAATG
GGATCTCCTTAAATGGAACA
14B
12
SGCV8
8
119-136 0.80
VIC
58
0.25
GAGTTCATTCTTTTTCGTGGCTG
15A
3
COR033
9
222-254 0.71
VIC
58
0.12
CCTCCCCTACTTCCTCTCTG
Abdtail(7)CATTTTCTTTCCAGGTTCCC
15A
22
HMS47
7
203-215 0.56 6FAM
58
0.12
CCTGCTGAGGACCTTGGAAGCT
Abdtail(7)ATGTATTTTCAAGTCTAATATCTGCC
15A
22
HTG14
5
130-148 0.68 6FAM
58
0.20
CCAGTCTAAGTTTGTTGGCTAGAA
CAAAGGTGAGTGATGGATGGAAGC
15A
3
LEX057
5
164-172 0.27
VIC
58
0.18
TGGTCCCCTAATCAAATCAGA
ACGGCATCCCACATAAAATAG
15A
24
LEX074
10
148-168 0.39 NED
58
0.20
AAGAGTGCTCCCGTGTG
GACAATGCAGAACTGGGTAA
15B
1
AHT21
8
199-215 0.78
VIC
60
0.35
TCCAAGTTGCTGAATGGATC
ACGGCCTGATTCTCTCTTTG
15B
29
ASB43
5
87-101 0.60
VIC
60
0.30
TCACTTAGTAGGGGCATGC
GTGTTTGTCCTTGACTCTCC
16
13
TKY416
6
132-142 0.69 6FAM
58
0.025/.313 GTCCAGGGACTGAACTTTCG
AGCCCGGAGCATCTTGTAGT
16
5
TKY456
9
176-198 0.73 6FAM
58
0.0315/.313 GCTGGATGGATAAATGAATGG
TGTTCGACTGAGCAGAGAGG
16
1
TKY466
6
311-323 0.70 6FAM
58
0.0315/.313 TGGAACACATTCCTCACCAG
GTTCTCCTTCCACCCCAAAT
Reverse Primer*
GGAAACACCCTAAGTGTCCCTTG
8
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
16
26
TKY523
7
119-183 0.80
VIC
58
0.0315/.313 TGCACACCCATTCTAGCTCA
GTGGCTCACTCCTCGCTTAC
16
2
TKY615
8
265-285 0.79
VIC
58
0.0315/.313 ACATGCCAACTCACCAACTG
TTCATCCTACGAGGGCTCAG
16
8
TKY620
6
173-187 0.67 NED
58
0.038/.313 GGACTTGGTCTGGTGACTCC
CCATTGTGATTCTCCGTCACT
16
20a
TKY694
5
109-129 0.76 NED
58
0.0315/.313 CCGCACAGACTTCACAAAGA
ACACACCCATGAACCCACTT
17
28
TKY467
9
234-254 0.61 6FAM
58
0.035/.313 GCGAACAGTTGCTGAACACT
TGCCTTTGGCTCAGAAAAAC
17
20
TKY477
9
108-134 0.81 6FAM
58
0.0315/.313 CCCCTCTCTCTCTCAAGTGC
CTCCTGGGTGGGAGAACTTT
17
8
TKY513
6
232-246 0.70
VIC
58
0.0315/.313 CCCGCTTCAGTGAAATGTCT
CCAAGTCAAAACACCGTAACAA
17
9
TKY540
6
166-192 0.63
VIC
58
0.0315/.313 TCCCACAACAGTTCCTCTCC
GAGATTGTGGGGGCATCTTA
17
13
TKY561
6
294-306 0.68
VIC
58
0.016/.313 TCTGCTCAGTTCCCAACACA
ACTGCACAGAACAGGGCTTC
17
7
TKY703
6
186-198 0.58 NED
58
0.0315/.313 TTCAGCAAGAACCACAGCAG
CCTGGGGTATCAGGTCATTG
18A
14
AHT029
5
270-292 NA
58
0.0315/.313 ACTCATTCATTCACAAATCCCC
AGAAAATTCCCTCCTGTCCC
18A
19
COR062
8
216-230 0.72 6FAM
58
0.0315/.313 GTCATCCAGTGACGAACACA
AGGAAGTGCGCAGTAGAGAA
18A
4
NVHEQ029
6
91-113 0.77
VIC
58
0.0315/.313 GAGATTTTGCCCCAAAGGTTA
CTCTTCTTTCTTCCCCAGGTCT
18B
11
TKY646
7
216-242 0.54 NED
58
0.035/.313 CACCGGTAGAGCCTCTGAAT
GCACAGTGACCATCTGGAAG
18B
7
TKY757
9
132-154 0.71 6FAM
58
0.0315/.313 TGCAGCCTTTATATTGGAGGA
CCCCCAGTAGTTGGCTGTAT
19A
15
TKY541
4
106-124 0.64
VIC
58
0.0315/.313 GAGGAGGGGCTTTCTCTCTC
TGCAAAAAGCCAACATTTCC
19A
13
TKY581
6
187-201 0.62
VIC
58
0.0315/.313 AAGAAGGGCTGGTGACCTCT
GGCAGCACTATTGGCTCTTC
19A
10
TKY601
11
281-313 0.79
VIC
58
0.0315/.313 CGAGGGGGAATTTTGTTTGT
ATAGAGCCATGCAGGGGAAA
19B
28
TKY425
8
109-125 0.76 6FAM
58
0.0315/.313 CCTGGGTGTCGTGTGTTTTA
TTCCTCTCTCCTGCCTCATC
19B
8
TKY436
6
144-154 0.64 6FAM
58
0.0315/.313 CCAGAAATCCCGAGTAGCTG
GGTCTTTCCAACCACATACACA
19B
16
TKY445
6
298-308 0.61 6FAM
58
0.035/.313 CCTGGGCTAATTCCCATTTT
CCAGCTCTTTGAAGGTAGCA
19C
22
TKY695
6
183-205 0.68 NED
58
0.0315/.313 TGCCATGCAAAGAAGTGAGA
TCCTTCCCCACTCTGCTTTA
19C
29
TKY715
8
242-264 0.69 NED
58
0.0315/.313 CAGTTTCACAGGAGAGAGAGTCC
CTGGAGTCCCACCTCCAAC
20
1
TKY670
3
167-171 0.63 NED
58
0.0315/.313 GTTGCTTTGGGACCAGTCAT
TCCAGCCCAGTCAGGTCTAT
20
1
TKY530
4
258-270 0.65
58
0.0315/.313 ACAAAGCTGTGTGACAGACCA
TCGTTTCTGCATCTCTTCCA
20
10
TKY496
4
220-240 0.63 6FAM
58
0.0315/.313 ATCATTCCTGGGGCTAAAGG
GATCAACCAGGGAGGAGGAG
20
9
TKY627
7
222-240 0.77 NED
58
0.0315/.313 GTGGGATAGGAGGGAGAGGA
CGAAGAGCTTGCTAGTTACCC
VIC
VIC
9
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
20
19
TKY538
5
151-165 0.54
VIC
58
0.0315/.313 TGGATGGAAGGGAAACAAGA
TTGAAGAGGGTGGAGCAAAT
20
20
TKY539
5
214-228 0.57
VIC
58
0.0315/.313 GCTTTCACGGCATTAACACA
ATTGATGGTGGCAAGGAGTC
21
4
TKY586
4
106-118 0.45
VIC
58
0.0315/.313 GCAGATTTCTCCCCACTCC
TTATGTGGGGCTGAGAAAGG
21
6
TKY412
7
234-248 0.64 6FAM
58
0.0315/.313 GTGTGGGACAGGAAGTTTGG
ATTCTTGGGTCCCCTCATCT
21
11
TKY630
6
186-198 0.58 NED
58
0.0315/.313 ATGGCAGGACTCAGCCTCT
AGCCTTCCTCCACAAGACTG
21
29
TKY628
4
240-250 0.54 NED
58
0.0315/.313 TGACACACAGGACCATCTCG
AAGTGCACTGAGACCCCATT
21
6
TKY556
8
202-250 0.75
58
0.0315/.313 GCAGAGGGTGAAGCCAGTAA
TAATTCCTGCTTGTCGCAAA
21
12
TKY404
4
190-196 0.65 6FAM
58
0.0315/.313 TTGTCAGTGTGTGAGGAGATCA
TGCAGAGCAGCAATTTCATT
22
5
TKY544
9
273-315 0.64
58
0.0315/.313 TGACCCAGTAAGCAGCCTGT
TGCCAGGGGAAGAACATTTA
22
9
TKY452
6
266-278 0.68 6FAM
58
0.0315/.313 TATTATGCCACCAGGCCAGT
TGACCATGGTGAACCAGAGA
22
17
TKY546
3
244-248 0.42
VIC
58
0.0315/.313 TAGGATGGGGCACCAAGTAG
CATTCCTAAGGGTGGAGCAC
22
21
TKY721
5
161-201 0.72 NED
58
0.0315/.313 TCAAATGGTTCAGTGAAAATGG
CCTCCCTCCCTTCCTTCTATT
23
2
TKY497
5
288-300 0.55 6FAM
58
0.0315/.313 CAGGAAACTGAGGCTTGAGG
GCCACATCTATGCAGCTTGA
23
4
TKY423
4
122-132 0.53 6FAM
58
0.0315/.313 AGGCCACACGACTACTTTCA
TTCTCAATAGGTACACGTGGAAT
23
22
TKY554
3
259-263 0.45
VIC
58
0.0315/.313 GGCCTTCCTGACTCCAATTT
AGCGTTTGCTGAAACCCATA
23
31
TKY668
7
177-193 0.77 NED
58
0.0315/.313 GCTGTAATGTACCGCCTGGT
TAGGCAGCTGCGATAAGACA
24
16
TKY719
5
177-187 0.26 NED
58
0.0315/.313 CTCATAACTGTGTGCCAATTCC
TGGTCATCACTTTTCTGTTGAA
24
7
TKY461
3
162-168 0.62 6FAM
58
0.0315/.313 ATGGCCCATCGTAAGAAACA
GAGGGAGGAAGAAAGGAAGG
24
15
TKY518
9
149-165 0.77
58
0.0315/.313 GATCCCCCACTGGCCTTA
ACGAACTCCAACAAATGCAA
25
19
TKY422
7
234-256 0.77 6FAM
58
0.035/.313 CAAATCTTCAGACTCTTTAGTCCTTG GACTGCAGCCCTAACCTCAC
25
30
TKY658
5
279-295 0.74 NED
58
0.0315/.313 AGGCGCAAGAACTCACTCTG
GCCAGTTGTCAATTGTGTGG
25
7
TKY613
4
266-272 0.55
VIC
58
0.0315/.313 CCAAGAAGGGCTGACTTCAC
GCCTAGACCTGGGGTCTTTC
25
8
TKY669
4
204-218 0.62 NED
58
0.0315/.313 CCCAGTTTTCCATCGTGAGT
TGACTGCTGGCATTTGTTTC
26A
10
TKY471
6
215-227 0.68 6FAM
58
0.0315/.313 AAATCTGCGCCTCTGAAGAT
TTCACCCAACCCCTCATAAA
26A
11
TKY551
3
265-269 0.42
58
0.0315/.313 GGAACAGATCCTCCCTCAGA
GAGGCCTTGCATGTGGAC
26A
16
TKY406
8
119-137 0.82 6FAM
58
0.0315/.313 CCACTAGGGGCCAGTGATT
GAACTCCACCCTTTGGGATT
26A
27
TKY603
6
203-221 0.67
58
0.0315/.313 TTTTTCTGTCCTTTTCACCTTCA
AACCAGCTTGCAAATCCTGT
VIC
VIC
VIC
VIC
VIC
10
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
26A
18
TKY692
6
130-156 0.68 NED
58
0.0315/.313 TTTCCCCACTAGATCCTGACA
TGCTCTGTAATCTGGCAAGC
26B
13
TKY693
7
219-235 0.71 NED
58
0.0315/.313 CAGAGACTGCTGTCAGCTCCT
CACAAATGCAGAACCCACAA
26B
4
TKY720
9
259-279 0.72 NED
58
0.035/.313 CAGGAGTATCCAGAATTGCAGA
CCAGCTGTGTGTAACGCAAT
27A
1
TKY410
6
298-310 0.63 6FAM
58
0.0315/.313 GGAGGAGGAGAGAGTGGGCTAC
CTGGACTTTGGACGGATTTC
27A
8
TKY573
4
274-282 0.68
VIC
58
0.0315/.313 CAGAATGAGGCGTTGAATCC
AGAGGCTTTAGGCTGGGAGT
27A
10
TKY592
6
171-185 0.61
VIC
58
0.0315/.313 TGCAGTGGGTACGTGTGTAA
GGGCAGACTTCCAAACAGTC
27A
18
TKY741
6
119-137 0.65
VIC
58
0.0130/.306 CCTTCCTTCTCCTAACTCAGTCC
TGGAAACCAGGAATAGGTGTG
27A
9
TKY761
7
114-132 0.67 6FAM
58
0.0315/.313 CTACTTGGAGCGGAGGACTG
TTGCAAAAGTTTGGGATTTTG
27B
17
TKY684
8
248-264 0.82 NED
58
0.0315/.313 TTTGCAGGCTTTCTGTATTTTT
TTCTGTTTCGTTTTCCCTGAA
28
2
TKY645
3
138-142 0.48 NED
58
0.0315/.313 CGATATAAGGAAGATGGCATAAGG TCTCTCTCCCCAATCTTTCATC
28
14
TKY636
8
206-234 0.76 NED
58
0.0315/.313 TAATCGAGGGGGCCTTAATC
CGCTCTCTCTAAAGGCTCCA
28
22
TKY572
5
122-132 0.63
VIC
58
0.0315/.313 GTGTAGCGCATGATCCAGTG
CCCCAGCCTGACCTTCAT
28
23
TKY568
11
217-257 0.82
VIC
58
0.0315/.313 TTCCTGACGTGAAGGCATTA
TGCCCTTCCTGCCTAGTAGA
29
1
TKY711
4
144-152 0.59 NED
58
0.0315/.313 GGAGCTCATATCCGGAGGTC
GGAGGGGCTGTTTGTTGTTA
29
16
TKY532
7
183-201 0.62
58
0.0315/.313 ACAAACACTCGTGGTTGCTG
TATTTTCAGCAAGGGGCAAC
29
23
TKY486
8
140-166 0.71 6FAM
58
0.0315/.313 CAGCTTTTGTTGGGAAGAGG
AACTCATCAGTCCATTGGCTTT
30
27
TKY576
4
292-298 0.66
VIC
58
0.0315/.313 ATTGCAGCCAATTTCCTACG
GCAGGGCATATGACAAGAAA
30
28
TKY515
4
145-151 0.98
VIC
58
0.0315/.313 AGGCCAGCAGTGTTCCTCTA
GGCTCAGGTACGTTCCCTTC
30
29
TKY478
9
110-130 0.81 6FAM
58
0.0315/.313 GCCTGGGTACCTTTGTTGAA
GGAACAGAATGGGAGTCCAG
30
31
TKY755
10
226-262 0.79 6FAM
58
0.0315/.313 CGAAGCTTCCACTCTTTTCC
CCGAATTATCCCTGCCCTAA
31
4
TKY797
5
132-158 0.57 6FAM
58
.0315/.313 CACCCCAATCGATGTCGAAG
CCATGCTGTGGTGGCATC
31
2
TKY784
6
200-212 0.69 6FAM
58
.063/.313 GATCAGTACTTTGCAAATGGATAAC GTAACTCCAAGGCTACGTTC
31
4
TKY810
8
253-271 0.63 6FAM
58
.0945/.313 CCACCTACGATGGGTTCAAT
CCAAGAGCACTGATACAGAG
31
14
TKY1053
7
87-103 0.62
VIC
58
.0315/.313 ATACTGGCTTTACGTCACAG
ATCACCACCAGAGTTAATGG
31
6
TKY570
7
159-177 0.72
VIC
58
.0315/.313 TCTCCGCAGCTCAAACTTTC
CTCAAAGGTGCCTGAGAAGC
31
15
TKY885
6
225-235 0.53
VIC
58
.0315/.313 TCAAACTGAGAGCTTCCTGG
TGGAAACTCATCCTCTAAGG
31
15
TKY926
8
95-113 0.48 NED
58
.0315/.313 GATCATGTACTGGGCACAG
ATGAGCAACCGGGTGTAAG
VIC
11
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
31
21
TKY623
7
281-299 0.70 NED
58
.0315/.313 CAGTGTGGGTGGGCTTTATC
ACCACTAGGGTGTGCATGTG
32
16
TKY802
5
100-112 0.65 6FAM
58
.0315/.313 GGAGGAAAGAGCTGAATGGA
TCATCCAGTTCACCCATCAG
32
21
TKY806
7
162-184 0.69 6FAM
58
.0945/.313 TGGAACTGTGATGATGTTGC
TCTTTCTTCCCTTCCGAGAG
32
27
TKY480
8
263-281 0.80 6FAM
58
.0945/.313 CAGAGGGCAGAGGATTTGTC
AGGGACGAGGACCAAATGTA
32
1
TKY597
7
158-170 0.69
VIC
58
.0315/.313 AGTGCCAAGGAGGCTGTCT
TCTTCTCCCCATGAGTCACC
32
5
TKY731
8
258-280 0.69
VIC
58
.063/.313 GGGCACAGACCTACTCCACT
GCAACAGCATCCCAGAATTT
32
21
TKY671
5
118-134 0.69 NED
58
.008/.313 AGGCAACATGAGAAGGCACA
ATAGCACCTGTTCCCTGGAG
32
18
TKY909
7
193-207 0.67 NED
58
.063/.313 GAGTCACACTTCTGGGAAG
GCTACCAAACAACACTTGGT
33
26
TKY488
7
107-119 0.66 6FAM
58
.063/.313 TGTGTTTGTGTGCTATATACATGCTT TGACATGAAGGCTGGACTTG
33
15
TKY795
4
138-152 0.50 6FAM
58
.0315/.313 AGAGTAATGTGGTGGAGGAG
TTTTGTGGCTAGGTTTTGGG
33
10
TKY751
7
213-231 0.57 6FAM
58
.0315/.313 ATGTGTGTGAGCGTGTTGTG
AGGCACCAGAATTTTTGGAA
33
28
TKY872
7
117-133 0.59
VIC
58
.0158/.313 TGGGGCTTTGGGAGACAT
CAAGGCCAGAATTTCTTGAAGT
33
23
TKY542
4
162-174 0.52
VIC
58
.0315/.313 GGTGCCTAACCCAGATATGC
CCCCATCAATTTCTGCTTTT
33
20
TKY547
4
224-238 0.59
VIC
58
.0315/.313 TTGCTCAGGAAGCAAAGGAT
AAAATGAGGCTTTCGCACAT
33
24
TKY631
7
119-133 0.73 NED
58
.0315/.313 AGGAAAGCTGCAGGCATAAA
TTCTGCTGCCAGAGAGAACA
33
11
TKY710
4
228-234 0.68 NED
58
.0315/.313 TCAGGAGTTTGGATAGATTTTGC
TGGAATAACTGAAATGTCCAACA
34
3
TKY450
8
113-119 0.80 6FAM
58
.0315/.313 GTTCTTCCTTCCCAGCACTT
CATTGTAAGTCGGGGACCAT
34
19
TKY783
6
140-154 0.69 6FAM
58
.0315/.313 TAGACAACTGACCAGTGCAA
CTGGTTGCTCCTGTCTTAAA
34
22
TKY785
6
181-193 0.74 6FAM
58
.0315/.313 TTAGGTGTCAAGTCTAGGAC
GTGGGGAAGACGCTAAAGAG
34
9
TKY816
5
218-226 0.50 6FAM
58
.0315/.313 ATATATGGAATGACGTTCCAGG
GCAGCAAGCAATATAGTTGTTC
34
18
TKY545
5
130-138 0.62
VIC
58
.0158/.313 GCAGCTTCCCTCTGTCCAC
TGACCTACGGCTTTGGTTTT
34
16
TKY871
6
246-262 0.62
VIC
58
.0315/.313 CACACTACTCATGAAGCCAT
ACTTGTCCCAGCACTGTTTG
34
10
TKY722
6
122-140 0.73 NED
58
.0315/.313 CATTTGCAACATGCCTCTTT
CATTACGCAGCAGATAAAGGA
35
7
TKY775
4
148-158 0.64 6FAM
58
.0315/.313 CAGATACAGTCGACAGCCAG
ATCAGGGACAATTTTGCTCAAG
35
25
TKY771
4
186-196 0.62 6FAM
58
.0315/.313 CAGTCCTCTCACTCCAACCT
GGACAGGTAAAGGTGGTATG
35
13
TKY594
5
137-157 0.66
VIC
58
.0315/.313 CAGAGGGAAGAGCCAGGAG
AAAAGGTGATGGGCACAGTT
35
20
TKY1115
7
234-256 0.47
VIC
58
.0315/.313 GAATACACACGGGTAGGTTG
ATGGCAGCCTACAGTAAAAG
12
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
35
8
TKY955
6
181-207 0.63 NED
58
.0315/.313 GCAGAATCATGGAGATGGAG
ACCACATGGATAGCTTTACC
36
28
TKY808
4
125-133 0.53 6FAM
58
.0315/.313 CCTGAGTGCTTTTGAAGTGG
ATACTTTTTGCCAACTACAAAATA
36
23
TKY441
8
190-210 0.77 6FAM
58
.063/.313 TGTCCTCCAGGAGAGGGAAG
TTTTTGAACGCTGATTGCAG
36
27
TKY804
6
244-260 0.74 6FAM
58
.0315/.313 GGATGGGTCAAGTGAAAGAG
TTCCTATGACCTAGTGAAGC
36
12
TKY734
6
194-206 0.72
VIC
58
.0315/.313 TGGCGTCTCACACACAAAAT
TTCAGCAGGGTGGATAAAGG
36
5
TKY911
8
135-151 0.60 NED
58
.0315/.313 GATCTTTAGAATCAGCTTGTTG
CTCGCCACGTTAGTTGATG
36
5
TKY1175
4
193-215 0.51 NED
58
.0315/.313 TTATCACCAGTTTCCAGAGC
CTTATTCCACCCACTAATTCAC
37
17
TKY792
6
136-152 0.61 6FAM
58
.0945/.313 CAGTTCCATCCATCAGTGAC
ATTCCCAAAGGGCCTTTTTC
37
27
TKY789
6
188-194 0.65 6FAM
58
.0315/.313 CATGAGGAGAGGAACAAAGG
CATCTCTGCTTTGGGAAGGC
37
7
TKY822
6
244-266 0.45 6FAM
58
.0315/.313 ATATATGCTGTGAGCCAACG
GCTTTCTCACAGTCCTCAAT
37
15
TKY571
4
144-152 0.70
VIC
58
.0158/.313 ACAGCACAGCAGCAAACAAA
CAGTGGGCCCAGGTGTATAG
37
24
TKY564
5
267-281 0.60
VIC
58
.0315/.313 GCCCAGGCAAATACATCATT
TGAGCTGTGAGCACTCCTTG
37
16
TKY1069
5
137-151 0.64 NED
58
.063/.313 TTTGAACCACCAACCAAAGG
CCCAAAGGGAAAGGATGATG
38
15
TKY743
7
189-225 0.64 6FAM
58
.063/.313 ACAAGGTGCCACAGTCAACA
TTGGGCTTGAGAGGAAAGAA
38
7
TKY793
4
246-256 0.58 6FAM
58
.063/.313 TCGACACAGATGTTAGCTCT
TGCAATGCAATTTGCTTCCC
38
22
TKY596
5
144-158 0.65
VIC
58
.0158/.313 AGGGATGTCCTCCCCTAAGA
TCACCACTTCCAGGGAGTCT
38
5
TKY521
4
217-223 0.56
VIC
58
.0158/.313 TCTTCTCAGGATTTGGGAGGT
CCCTTCTGAACGGCTTATGA
38
14
TKY930
7
140-154 0.65 NED
58
.063/.313 TTTGGACTTGCTTGGCCAG
AGAGAAGCAAAACCAGTAGG
38
6
TKY1001
9
226-258 0.67 NED
58
.063/.313 TCTCAGAAGCCATCTGGAG
ATCGATGCAGAACACGTGG
39
9
TKY805
5
193-207 0.53 6FAM
58
.0315/.313 TGCCTTTTTCTCTCATCACC
AGACTAGTCTGCAAGTTCAG
39
12
TKY769
9
232-254 0.76 6FAM
58
.0315/.313 CCAGCGTGCCACCTGTTC
GTCAGTGTTCTTTCTCCTGT
39
14
TKY438
5
277-295 0.97 6FAM
58
.0315/.313 TCCCGAGAAAGGTGTGAGAC
AAAACTGTCACAGGGCAGGT
39
24
TKY849
7
144-164 0.48
VIC
58
.0315/.313 GATCTTAAAAGTCCTTACCACAC
CACAGATTTAATTGGCACGTGA
39
1
TKY888
4
190-196 0.54
VIC
58
.0315/.313 GGCTAGAAATAGTAGGCAGG
GGGTTTTAAAGCTGCCCACG
39
4
TKY661
5
160-174 0.68 NED
58
.0315/.313 CGAGGTCTTGGAACCTATCC
TTCACTTCAGACAACTCTATTGAAGA
39
26
TKY664
6
259-279 0.58 NED
58
.0315/.313 TACTGCCCTTGGCTGACTCT
CAGAACATGAACCCCTCCAG
40
11
TKY424
8
158-174 0.69 6FAM
58
.0315/.313 ATACAGGAGTGCGCTTTTCC
AAACCATCCTCCACCTTTCC
13
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
40
18
TKY770
5
202-218 0.66 6FAM
58
.0315/.313 CCCTGTCATGTATAAAGTAGAAGG
GGGGCTAAATAAGGTTGTATATGG
40
13
TKY421
8
270-292 0.70 6FAM
58
.063/.313 CCTTGTAGGAGGCGAGTCAG
GCCACTTCCTACCAATGCTC
40
2
TKY850
4
145-161 0.65
VIC
58
.0315/.313 TGGTTTGCTGGTTTTGCCTC
AGACATAGGTATTGACTGGG
40
10
TKY867
5
209-227 0.59
VIC
58
.0945/.313 AGCTAATGTCAGTAGGTTGG
TTCCAAGCATCTTAAGGAGG
40
1
TKY899
8
161-179 0.70 NED
58
.0315/.313 AGCAACAGAGTAATGCCAAG
TAGGCGGGTTTTAAACATGG
40
1
TKY898
4
268-274 0.55 NED
58
.063/.313 GATCCTCAACCTAGGTCTC
AAGTGGGGAGTGAGCAATG
41
10
TKY503
6
116-128 0.77 6FAM
58
.0315/.313 CCCATCTCAACCCAGGTAAA
TGTGAACATGGCTCTAGTGGA
41
24
TKY756
5
158-172 0.69 6FAM
58
.0315/.313 TGAAGGGAGCATCCGTTACT
GGTGGATCTGCCCTCAGTAG
41
3
TKY447
6
198-218 0.72 6FAM
58
.063/.313 TCGGCCTTTAAAACCTAATCC
GGAGTAAATTGGAGGCAGCA
41
14
TKY491
5
256-268 0.56 6FAM
58
.0315/.313 CCTCTTGGGACAGAGGACAG
TCTCTCAGGAGCCTGTGTTG
41
22
TKY582
5
169-181 0.68
VIC
58
.0315/.313 AGGCAGCTTGACTACCCTGA
AAAGTCTCCCCTGCGTGTT
41
19
TKY738
5
231-245 0.51
VIC
58
.0315/.313 CCCGCAAAATACACCACTGT
GGGTCCTTTCAGCCTCATCT
41
1
TKY706
6
173-189 0.69 NED
58
.0315/.313 AGGCACTAGGCAGGGACTTC
ACCCAGGTGGTCTTGTTCAG
41
2
TKY929
6
246-256 0.61 NED
58
.063/.313 AGACATGTAGAGAGTAGCTG
TGGGATGGATACTCATGATG
.0315/.313 ACTTTGCACCTGTGCAAAAAG
CTGATTCTTGGCATCTGGAAA
42
26
TKY766
9
0.76 6FAM
58
42
8
TKY813
5
190-208 0.42 6FAM
58
.0315/.313 CCACCAATCTGTGGTTCTAT
TGATGTTCTCCTTGCCGAAA
42
9
TKY457
5
273-287 0.72 6FAM
58
.0315/.313 GCCTCAAAGTTGGGTGAAAA
ACTCCCTTTCCGAGATTGGT
42
2
TKY842
8
42
22
TKY560
42
3
42
82-98
83-89
0.77
VIC
58
.0158/.313 ACATTTGACGTGACCTCTCA
GGCAAGCTCAGTGTAGTAAA
5
164-182 0.62
VIC
58
.0315/.313 ATCCACCCTCTGCTCCTCTC
CCCAAGGGAAAAATGGAAAA
TKY937
7
124-154 0.74 NED
58
.0315/.313 TCCTGCGGAAATACATTAGG
AGTTCAAAGTGGTCCCATAG
1
TKY682
6
178-192 0.58 NED
58
.0315/.313 CACCCCAGCCCCTTGATA
TCTGAAGCATGGCTCCCAAG
43
19
TKY817
5
151-161 0.58 6FAM
58
.0315/.313 TATAAACAAGGGCAGAGCGA
GAGTGAATTCCCTGCTTCTC
43
8
TKY468
4
284-296 0.51 6FAM
58
.0315/.313 TTCCCTAAAGGCAACCACAG
TGTGGAATCAATGTTCTGCAA
43
19
TKY606
4
130-136 0.60
VIC
58
.0315/.313 ACATGCCAACTCACCAACTG
TTCATCCTACGAGGGCTCAG
43
15
TKY565
7
192-208 0.70
VIC
58
.0315/.313 GGGGCGTTAAGGCAGTAAG
ATGCGCTTCAGCATCTCTTT
43
28
TKY709
5
139-161 0.63 NED
58
.0315/.313 CTTTTCTGGGGCTGTGTGTC
CAAGGGGGAAGATGATGATG
44
19
TKY448
10
140-162 0.83 6FAM
58
.0315/.313 TTCTTTTGCTCTCCCTCTCG
GGAAAGACAGAGTAAGTGCGTGT
14
MPX
Chr
Set
Marker
#Alleles
Size
PIC
Annealing Primer
Dye
Forward Primer
Range Values
Temp. Conc. (uM)
Reverse Primer*
44
5
TKY489
3
175-191 0.52 6FAM
58
.0315/.313 AAACCCATCACATACGCACA
TGCAAATGAAATGCTGTTCC
44
15
TKY1033
7
142-162 0.69
VIC
58
.0158/.313 AGACATGGATTTAGGGAGTG
GCAGAGCCATGCTAAAACTG
44
9
TKY533
5
232-240 0.70
VIC
58
.0315/.313 CACTCTCCAGCTGGGTTAGC
AGGTGATGGGCTGGATACAC
44
4
TKY698
7
258-278 0.68 NED
58
.0315/.313 TGTTGAGGCAAGGGTTCTTT
CTCCATTGCCCACTCCTTAG
45A
4
TKY337
5
170-185 0.58
VIC
60
0.25
AGCAGGGTTTAATTACCGAG
TAGATGCTAATGCAGCACAG
45A
1
TKY297
7
210-250 0.73
VIC
60
0.25
GTCTTTTTGTGCCTCTGGTG
TCAGGGGACAGTGGCAGCAG
45A
27
TKY294
6
206-248 0.63 NED
60
0.30
GATCTATGTGCTAGCAAACAC
CTAGTGTTTCAGATAGCCTC
45B
5
TKY344
6
90-108 0.73 6FAM
56
0.50
GTGTCCATCAATGGATGAAG
CTTAAGGCTAAATAATATCCC
45B
11
TKY343
7
142-170 0.53 6FAM
56
0.25
TAGTCCCTATTTCTCCTGAG
AAACCCACAGATACTCTAGA
45B
16
TKY279
6
115-135 0.72 6FAM
56
0.30
AATGAATGAGACTTGAACCC
TCTGCTGTTTTAGGCTCGG
45B
17
TKY287
6
220-240 0.74 6FAM
56
0.35
ATCAGAGAACACCAAGAAGG
ATCAGAGAACACCAAGAAGG
46A
23
TKY301
8
132-174 0.84
VIC
60
0.14
AATGGTGGCTAATCAATGGG
GTGTATGATGCCCTCATCTC
46A
1
TKY374
8
189-231 0.81
VIC
60
0.30
CTGGTCCCTCTGGATGGAAG
TCCCAAGAGGGAGTACAATC
46B
29
TKY325
9
170-200 0.78 6FAM
56
0.25
GGATGGAGTGAGATAATACC
TGGATGAACCATGAATAGTG
46B
28
TKY333
8
77-117 0.81 6FAM
56
0.16
CCTTCACTAGCCTTCAAATG
TTGTGTTTAGACAGTGCTGC
46B
16
TKY341
8
127-169 0.74 6FAM
56
0.30
TATCCAGTCACCCATTTTAC
TTGTGTCAGTACACTCTATG
46B
24
TKY394
7
240-250 0.78 6FAM
56
0.22
GCATCATCGCCTTGAAGTTG
CCTTTCTGGTTGGTATCCTG
47A
1
COR100
7
217-235 0.99
56
0.45
CCCAGAGGTTTCAGAGGG
Abdtail(7)ATTCTAGGGCATATTATGACAA
47A
21
LEX037
4
196-202 0.43 6FAM
56
0.08
GGATTCCTCAACCTCCTAAA
Abdtail(7)AGGGATAAGTGACCACCAC
47A
15
LEX046
7
117-129 0.74 NED
56
0.12
ATAAGCCAATCCACTTTTCC
ATTACCACCCCATTTCCTT
47B
6
TKY28
7
273-357 0.66 NED
58
0.20
TTCAGCAGGGTCTCATGCCAC
47B
11
SGCV13
5
162-172 0.50 NED
58
0.15
GGACTAAAGCCCAACCATCCAGC
VIC
TTCGGCTCTGGTTCAAGAGG
CTCACCAGTAAGGGGTTATGGGGC
*Abdtail refers to a unique 7bp sequence (Applied Biosystems, Foster City, CA) added to the 5'-end of the reverse primer. Primers can be synthesized without the Abdtail;
expected size ranges decrease by ca. 7 bp.
15
Figure 1. Distribution on horse chromosomes of 316 markers in the genome scan panel. Markers shown off to the side and not
connected to the respective chromosome are assigned to the region in the latest linkage map but not included in the linear order with
sufficient statistical support. Markers shown in black font represent new markers added to the horse linkage map (Penedo et al. 2005).
16
17
18