Citrus CAPS Marker Database


Locus info		Cultivar Idenification							SNP info	Target on C. clementina (v1.0)				Target on C. unshiu (v1.0)					AGI map info (Shimada et al. 2014 Takehiko Shimada, Hiroshi Fujii, Tomoko Endo, Takanori Ueda, Aiko Sugiyama, Michiharu Nakano, Masayuki Kita, Terutaka Yoshioka, Tokuro Shimizu, Hirohisa Nesumi, Yoshinori Ikoma, Takaya Moriguchi, Mitsuo Omura (2014) Construction of a citrus framework genetic map anchored by 708 gene-based markers. Tree Genetics & Genomes. 10: 1001-1013. )		KmMg map info (Omura et al. 2003 Mitsuo Omura, Takanori Ueda, Masayuki Kita, Akira Komatsu, Yuko Takanokura, Takehiko Shimada, Tomoko Endo, Hirohisa Nesumi, ToshioYoshida (2003) EST mapping of Citrus. Proceedings of the International Society of Citriculture IX Congress 2000. 71-74. )		JtTr map info (Omura et al. 2003 Mitsuo Omura, Takanori Ueda, Masayuki Kita, Akira Komatsu, Yuko Takanokura, Takehiko Shimada, Tomoko Endo, Hirohisa Nesumi, ToshioYoshida (2003) EST mapping of Citrus. Proceedings of the International Society of Citriculture IX Congress 2000. 71-74. )		Km/O41 map info (Nakano et al. 2003 Mutsuko Nakano, Hirohisa Nesumi, Terutaka Yoshioka, Mitsuo Omura, Toshio Yoshida (2003) Linkage analysis between male sterility of citrus and STS markers. Proceedings of the International Society of Citriculture IX Congress 2000. 179-180 )		Rp/Sa map info (Ohta et al. 2011 Satoshi Ohta, Tomoko Endo, Takehiko Shimada, Hiroshi Fujii, Tokuro Shimizu, Takeshi Kuniga, Terutaka Yoshioka, Hiroshisa Nesumi, Toshio Yoshida, Mitsuo Omura (2011) PCR primers for marker assisted backcrossing to introduce a CTV resistance gene from Poncirus trifoliata (L.) Raf. into citrus. Journal of the Japanese Society for Horticultural Science. 80: 295-307. )
Locus name ▲▼	Locus name alias ▲▼	Rank hybrid cultivar ▲▼	Citrus collection O -	Cultivar identifi- cation manual O -	Ninomiya et al. 2015 Taizo Ninomiya, Takehiko Shimada, Tomoko Endo, Keisuke Nonaka, Mitsuo Omura, Hiroshi Fujii (2015) Development of Citrus Cultivar Identification by CAPS Markers and Parentage Analysis. Hort. Res. (Japan) 14: 127-133. O -	Nonaka et al. 2017 Keisuke Nonaka, Hiroshi Fujii, Masayuki Kita, Takehiko Shimada, Tomoko Endo, Terutaka Yoshioka, Mituso Omura (2017) Identification and parentage analysis of citrus cultivars developed in Japan by CAPS Markers. The Horticulture Journal. 86: 208-221. O -	Graphical map O -	Genotype O -	Fujii et al. 2013 Hiroshi Fujii, Takehiko Shimada, Keisuke Nonaka, Masayuki Kita, Takeshi Kuniga,Tomoko Endo, Yoshinori Ikoma, Mitsuo Omura (2013) High-throughput genotyping in citrus accessions using an SNP genotyping array. Tree Genetics & Genomes. 9: 145-153. ▲▼	Transcript ID ▲▼	Scaffold ▲▼	Start	End	Transcript ID ▲▼	Scaffold ▲▼	Start	End	Gene function ▲▼	AGI LG ▲▼	AGI cM	KmMg LG ▲▼	KmMg cM	JtTr LG ▲▼	JtTr cM	Km/O41 LG ▲▼	Km/O41 cM	Rp/Sa LG ▲▼	Rp/Sa cM
Bf0117			-	-	-	-	-	-		Ciclev10013983m	scaffold_1	2490	4223
Af2143			-	-	-	-	-	-		Ciclev10010213m	scaffold_1	149283	154945
Al0523			-	-	-	-	-	-		Ciclev10009349m	scaffold_1	177116	180417
Af1752			-	-	-	-	-	-		Ciclev10009349m	scaffold_1	177116	180417
Af1171			-	-	-	-	-	-		Ciclev10008298m	scaffold_1	275263	280936
Al0204			-	-	-	-	-	-		Ciclev10008298m	scaffold_1	275263	280936	C_unshiu_00003:mRNA_150.2	C_unshiu_00003	1127884	1133567	Myosin heavy chain-like protein					JtR-09S	5.527
Cp1938			-	-	-	-	-	-		Ciclev10009324m	scaffold_1	329071	331103
Af1406			-	-	-	-	-	-		Ciclev10009324m	scaffold_1	329071	331103
Tf0176			-	-	-	-	-	-		Ciclev10008476m	scaffold_1	385469	388179	C_unshiu_00003:mRNA_163.1	C_unshiu_00003	1226924	1232429	Hypothetical protein									RP-01
Tf0177			-	-	-	-	-	-	SI133	Ciclev10008476m	scaffold_1	385469	388179	C_unshiu_00003:mRNA_163.1	C_unshiu_00003	1226924	1232429	Hypothetical protein
Af3288			-	-	-	-	-	-		Ciclev10008476m	scaffold_1	385469	388179
Af3188			-	-	-	-	-	-		Ciclev10007898m	scaffold_1	448785	452457
Af1142			-	-	-	-	-	-		Ciclev10008681m	scaffold_1	487184	489198
Al0630		AAvailable marker	O	-	-	-	-	O		Ciclev10008681m	scaffold_1	487184	489198	C_unshiu_00129:mRNA_38.1	C_unshiu_00129	342865	344872	Kelch repeat-containing F-box family protein									RP-01	1.092
Tf0226		AAvailable marker	O	-	-	-	-	O		Ciclev10008836m	scaffold_1	526813	529150	C_unshiu_00129:mRNA_32.1	C_unshiu_00129	303106	311407	Exocyst subunit EXO70 family protein									RP-01	1.100
Tf0407			-	-	-	-	-	-		Ciclev10008836m	scaffold_1	526813	529150
Bf0417			-	-	-	-	-	-		Ciclev10009842m	scaffold_1	693215	695933
Tf0102			-	-	-	-	-	-		Ciclev10008813m	scaffold_1	734373	736031
Cp0427			-	-	-	-	-	-		Ciclev10009075m	scaffold_1	738477	743395
Ov0417			-	-	-	-	-	-		Ciclev10007609m	scaffold_1	851900	857695
Tf0400			-	-	-	-	-	-		Ciclev10007357m	scaffold_1	928640	936397
Af1256			-	-	-	-	-	-		Ciclev10008233m	scaffold_1	940514	942972
Af1392			-	-	-	-	-	-		Ciclev10008930m	scaffold_1	1051155	1052947
Al0014			O	-	-	-	-	-	SI058,SI153,SI312	Ciclev10008225m	scaffold_1	1070373	1072218	C_unshiu_00005:mRNA_43.1	C_unshiu_00005	281165	283012	CBL-interacting serine/threonine-protein kinase 20	AGI-01	97.525							RP-01	3.295
Al0426			-	-	-	-	-	-		Ciclev10007391m	scaffold_1	1128897	1137063
Cp1666			-	-	-	-	-	-		Ciclev10008009m	scaffold_1	1149150	1151996
Af1157			-	-	-	-	-	-		Ciclev10009325m	scaffold_1	1234555	1235706
Af1241			-	-	-	-	-	-		Ciclev10008227m	scaffold_1	1401842	1406346
Af1528			-	-	-	-	-	-		Ciclev10009892m	scaffold_1	1676368	1677018
Af1123			-	-	-	-	-	-		Ciclev10009597m	scaffold_1	1687894	1690412
Cp1670			-	-	-	-	-	-		Ciclev10009435m	scaffold_1	1709131	1710064
Af1481			-	-	-	-	-	-		Ciclev10009202m	scaffold_1	1797060	1800274
Vt0012			-	-	-	-	-	-		Ciclev10007708m	scaffold_1	1806179	1809814
Vt0021			-	-	-	-	-	-		Ciclev10007296m	scaffold_1	2015894	2023323
Af1311			-	-	-	-	-	-		Ciclev10009720m	scaffold_1	2025698	2028188
Tf0341			-	-	-	-	-	-		Ciclev10009720m	scaffold_1	2025698	2028188
Af1137			-	-	-	-	-	-		Ciclev10009474m	scaffold_1	2038681	2041094
Ov0427			-	-	-	-	-	-		Ciclev10009427m	scaffold_1	2156679	2158871	C_unshiu_00553:mRNA_14.1	C_unshiu_00553	110847	134434	Hypothetical protein			KmG-05S	36.268
Ov0428	Ov0427.2		-	-	-	-	-	-		Ciclev10009427m	scaffold_1	2156679	2158871
Af1549			-	-	-	-	-	-		Ciclev10009920m	scaffold_1	2184513	2186967
Sd0005			-	-	-	-	-	-		Ciclev10008384m	scaffold_1	2344790	2346942
Af1561			-	-	-	-	-	-		Ciclev10009643m	scaffold_1	2420324	2423040
Af1369			-	-	-	-	-	-		Ciclev10008015m	scaffold_1	2551920	2555129
Al0314			-	-	-	-	-	-		Ciclev10009591m	scaffold_1	2574769	2577568
Lp0138			-	-	-	-	-	-		Ciclev10008908m	scaffold_1	2599957	2603377
Af1213			-	-	-	-	-	-		Ciclev10010027m	scaffold_1	2821922	2823925
Af1461			-	-	-	-	-	-		Ciclev10007728m	scaffold_1	2851521	2854493
Af1360			-	-	-	-	-	-		Ciclev10008482m	scaffold_1	3061549	3065503
Af1274			-	-	-	-	-	-		Ciclev10009370m	scaffold_1	3152548	3153983
Af1079			-	-	-	-	-	-		Ciclev10009570m	scaffold_1	3255140	3258139
Tf0092			-	-	-	-	-	-	SI099	Ciclev10007435m	scaffold_1	3285601	3291534	C_unshiu_00006:mRNA_60.1	C_unshiu_00006	496127	502071	Class III HD-Zip family protein
Af2042			-	-	-	-	-	-		Ciclev10008181m	scaffold_1	3521485	3525524
Af1175			-	-	-	-	-	-		Ciclev10009729m	scaffold_1	3647539	3651252
Af1444			-	-	-	-	-	-		Ciclev10009174m	scaffold_1	3665141	3672863
Al0220			-	-	-	-	-	-		Ciclev10008097m	scaffold_1	3683537	3688814
Cp0741		AAvailable marker	O	-	-	-	O	O		Ciclev10008230m	scaffold_1	3746864	3749903	C_unshiu_00055:mRNA_22.1	C_unshiu_00055	168281	172005	Ferrochelatase	AGI-01	75.964
Af1476			-	-	-	-	-	-		Ciclev10009256m	scaffold_1	3862913	3866838
Af1402b			-	-	-	-	-	-		Ciclev10007310m	scaffold_1	3941093	3948163
Gmom08			-	-	-	-	-	-		Ciclev10008617m	scaffold_1	4143948	4146608
Gmom09			-	-	-	-	-	-		Ciclev10008617m	scaffold_1	4143948	4146608
Tf0118			-	-	-	-	-	-		Ciclev10008617m	scaffold_1	4143948	4146608
Al0616			-	-	-	-	-	-		Ciclev10007561m	scaffold_1	4343812	4351112
Af1413			-	-	-	-	-	-		Ciclev10009114m	scaffold_1	4522022	4524821
Cp0699			-	-	-	-	-	-		Ciclev10009114m	scaffold_1	4522022	4524821
Af1478			-	-	-	-	-	-		Ciclev10009725m	scaffold_1	4534161	4535260
Lp0205			-	-	-	-	-	-		Ciclev10008932m	scaffold_1	4541676	4543982
Af1570			-	-	-	-	-	-		Ciclev10009899m	scaffold_1	4601588	4603705
Af1107			-	-	-	-	-	-		Ciclev10009146m	scaffold_1	4606912	4610637
Bf0011		AAvailable marker	O	-	-	-	O	O	SI218	Ciclev10008900m	scaffold_1	4722889	4726339	C_unshiu_00547:mRNA_9.1	C_unshiu_00547	54556	57654	NADH-cytochrome b5 reductase	AGI-01	67.331							RP-01	23.653
Fb0225			-	-	-	-	-	-		Ciclev10008570m	scaffold_1	4873970	4878979	C_unshiu_00039:mRNA_6.1	C_unshiu_00039	54980	59746	Protein arginine N-methyltransferase 1									RP-05	33.168
Af1531			-	-	-	-	-	-		Ciclev10008796m	scaffold_1	4984340	4987674
Tf0175			-	-	-	-	-	-		Ciclev10010825m	scaffold_1	5054551	5056146
Cp0045			-	-	-	-	-	-		Ciclev10008435m	scaffold_1	5194085	5198860
Cp1931			-	-	-	-	-	-		Ciclev10008910m	scaffold_1	5353694	5358135
Cp0716			-	-	-	-	-	-		Ciclev10009855m	scaffold_1	5435165	5436509
Cp1935			-	-	-	-	-	-		Ciclev10007732m	scaffold_1	5518821	5522727
Af1081			-	-	-	-	-	-		Ciclev10010514m	scaffold_1	5650217	5655629
Mf0033		AAvailable marker	-	-	-	-	O	O		Ciclev10010044m	scaffold_1	6227617	6228389	C_unshiu_00075:mRNA_11.1	C_unshiu_00075	123779	124531	Hypothetical protein	AGI-01	62.570	KmG-01	46.353	JtR-01S	106.811	NAT-01S	77.905
Mf0050			-	-	-	-	-	-		Ciclev10010044m	scaffold_1	6227617	6228389
Tf0263			-	-	-	-	-	-	SI013	Ciclev10008768m	scaffold_1	6358030	6359568	C_unshiu_00075:mRNA_22.1	C_unshiu_00075	227733	229211	Heat shock transcription factor A7a1
Af1551			-	-	-	-	-	-		Ciclev10008489m	scaffold_1	6494973	6502196
Mf0074			-	-	-	-	-	-		Ciclev10008734m	scaffold_1	6617921	6622625
Bf0022			-	-	-	-	-	-		Ciclev10008584m	scaffold_1	6628388	6634237
Vs0017			-	-	-	-	-	-		Ciclev10009470m	scaffold_1	6647158	6649599
Tf0233			-	-	-	-	-	-		Ciclev10008804m	scaffold_1	6772264	6775904
Af1278			-	-	-	-	-	-		Ciclev10009508m	scaffold_1	6903804	6908960
Mf0067		OOthers	-	-	-	-	-	-		Ciclev10008855m	scaffold_1	7264569	7269002	C_unshiu_00837:mRNA_9.1	C_unshiu_00837	91807	96079	Protein phosphatase 1 regulatory subunit pprA			KmG-032	18.460	JtR-031	13.247
Al0216			-	-	-	-	-	-		Ciclev10007632m	scaffold_1	7359982	7369305
Bf0025			-	-	-	-	-	-		Ciclev10008159m	scaffold_1	7402730	7407596
Al0330			-	-	-	-	-	-		Ciclev10009377m	scaffold_1	7455492	7457451
Cp0277			-	-	-	-	-	-		Ciclev10008086m	scaffold_1	7776970	7783395
Al0513		OOthers	-	-	-	-	-	-		Ciclev10009222m	scaffold_1	8046181	8049306	C_unshiu_00191:mRNA_21.1	C_unshiu_00191	243988	246458	Stem 28 kDa glycoprotein	AGI-01	60.031	KmG-01	41.591
Af1108			-	-	-	-	-	-		Ciclev10009222m	scaffold_1	8046181	8049306
Af1181			-	-	-	-	-	-		Ciclev10009123m	scaffold_1	8063530	8066056
Cp2210		AAvailable marker	-	-	-	-	-	O		Ciclev10007886m	scaffold_1	8125279	8130885	C_unshiu_00744:mRNA_3.1	C_unshiu_00744	19836	25320	6-phosphofructokinase isoform 1
Af1032			O	-	-	-	-	-		Ciclev10009868m	scaffold_1	8377489	8379348
Af1537			-	-	-	-	-	-		Ciclev10009797m	scaffold_1	8417158	8419377
Ov0026	Ov0026.k		-	-	-	-	-	-		Ciclev10009797m	scaffold_1	8417158	8419377
Ov0027	Ov0027.em		-	-	-	-	-	-		Ciclev10009797m	scaffold_1	8417158	8419377	C_unshiu_00584:mRNA_9.1	C_unshiu_00584	74089	76266	60S ribosomal protein L28	AGI-03	51.749
Af1300			-	-	-	-	-	-		Ciclev10008203m	scaffold_1	8539647	8542949
Af1370			-	-	-	-	-	-		Ciclev10009015m	scaffold_1	8822834	8826308	C_unshiu_00579:mRNA_6.1	C_unshiu_00579	46507	50108	Plasma membrane	AGI-01	56.590
Wy0008		HDisagree on Clementine haploid genotype	O	-	-	-	-	-		Ciclev10009193m	scaffold_1	9297360	9299641	No					AGI-01	57.863	KmG-01	43.003	JtR-01S	99.300
Af1512			-	-	-	-	-	-		Ciclev10008994m	scaffold_1	9300782	9304559
Af1078			-	-	-	-	-	-		Ciclev10007573m	scaffold_1	9428841	9434694
Bf1192			-	-	-	-	-	-		Ciclev10008160m	scaffold_1	10678653	10684627	C_unshiu_00242:mRNA_11.1	C_unshiu_00242	100038	105603	Casein kinase I-like protein	AGI-01	57.863
Gn0069		ULess informative for main cultivars	O	-	-	-	-	-	SI086,SI375	Ciclev10008410m	scaffold_1	10946316	10949617	C_unshiu_00201:mRNA_19.1	C_unshiu_00201	212151	227232	Lycopene epsilon cyclase	AGI-01	57.863
Af1065			-	-	-	-	-	-		Ciclev10009538m	scaffold_1	11008759	11012720
Af1120			-	-	-	-	-	-		Ciclev10008829m	scaffold_1	11232482	11237918
Lp0130			-	-	-	-	-	-		Ciclev10008029m	scaffold_1	11512415	11514434
Cp1644			-	-	-	-	-	-		Ciclev10008029m	scaffold_1	11512415	11514434
Cp0475			-	-	-	-	-	-		Ciclev10008029m	scaffold_1	11512415	11514434
Af1285			-	-	-	-	-	-		Ciclev10010796m	scaffold_1	12807597	12808725
Tf0059			-	-	-	-	-	-	SI101	Ciclev10007297m	scaffold_1	12883722	12897805	C_unshiu_00450:mRNA_3.1	C_unshiu_00450	36956	58462	AGC family Serine/Threonine kinase family protein	AGI-01	56.416
Tf0414			-	-	-	-	-	-		Ciclev10007297m	scaffold_1	12883722	12897805
Af1459			-	-	-	-	-	-		Ciclev10009503m	scaffold_1	12972605	12977393
Ov0115			-	-	-	-	-	-		Ciclev10008504m	scaffold_1	13063201	13068419
Vt0013			-	-	-	-	-	-		Ciclev10008981m	scaffold_1	13123280	13126173
Al0603			-	-	-	-	-	-		Ciclev10007714m	scaffold_1	13325813	13336158
Af1353			-	-	-	-	-	-		Ciclev10009740m	scaffold_1	14026557	14027565
Fb0478			-	-	-	-	-	-		Ciclev10008010m	scaffold_1	14592248	14596429	C_unshiu_00071:mRNA_18.1	C_unshiu_00071	196512	200666	Beta-glucosidase 44	AGI-01	61.025
Fb0275			O	-	-	-	-	-		Ciclev10008562m	scaffold_1	15883118	15887517	C_unshiu_00288:mRNA_9.1	C_unshiu_00288	55910	60461	Malate dehydrogenase	AGI-01	55.687
Fb0722			-	-	-	-	-	-		Ciclev10008390m	scaffold_1	16098039	16100795
Af1321			-	-	-	-	-	-		Ciclev10009751m	scaffold_1	16371168	16375666	C_unshiu_00108:mRNA_25.1	C_unshiu_00108	320409	344557	Hypothetical protein	AGI-06	34.500
Af1197			-	-	-	-	-	-		Ciclev10009151m	scaffold_1	16467942	16471056
Cp1093			-	-	-	-	-	-		Ciclev10009636m	scaffold_1	16696979	16699623
Ov0518			-	-	-	-	-	-		Ciclev10009133m	scaffold_1	17185032	17187893
Af1070			O	-	-	-	-	-		Ciclev10008140m	scaffold_1	17308566	17311235
Mf0007		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10008907m	scaffold_1	17471330	17472833	C_unshiu_00044:mRNA_52.1	C_unshiu_00044	424343	425685	NADPH-dependent codeinone reductase-like protein
Mf0006			-	-	-	-	-	-		Ciclev10010036m	scaffold_1	17554790	17556053
Bf0182			O	-	-	-	-	-		Ciclev10009454m	scaffold_1	17831333	17834889	C_unshiu_00429:mRNA_12.1	C_unshiu_00429	90883	94296	3-deoxy-D-manno-octulosonate cytidylyltransferase	AGI-01	47.439
Cp1624		AAvailable marker	-	O	-	O	O	O	SI307	Ciclev10008537m	scaffold_1	18068297	18070262	C_unshiu_00187:mRNA_17.1	C_unshiu_00187	99220	100762	CBS domain-containing protein CBSX5	AGI-01	58.420	KmG-01	53.054
Al0334			-	-	-	-	-	-		Ciclev10008488m	scaffold_1	18113949	18117209
Cp0016			-	-	-	-	-	-		Ciclev10008520m	scaffold_1	18117264	18119451
Af1622			-	-	-	-	-	-		Ciclev10008520m	scaffold_1	18117264	18119451	C_unshiu_00187:mRNA_23.3	C_unshiu_00187	141733	143877	Protochlorophyllide reductase, chloroplastic	AGI-01	54.754
Wy0057	Wy0057.em		-	-	-	-	-	-		Ciclev10008812m	scaffold_1	18270818	18273015
Tf0066			-	-	-	-	-	-	SI221	Ciclev10008812m	scaffold_1	18270818	18273015	C_unshiu_00187:mRNA_34.1	C_unshiu_00187	287391	289585	NAC domain-containing protein 72	AGI-01	58.420
Tf0245			-	-	-	-	-	-	SI021	Ciclev10008628m	scaffold_1	18298599	18300295	C_unshiu_00548:mRNA_21.1	C_unshiu_00548	168151	169460	Hypothetical protein
Al0526	Al0526.em		-	-	-	-	-	-		Ciclev10008628m	scaffold_1	18298599	18300295
Tf0359			-	-	-	-	-	-		Ciclev10008628m	scaffold_1	18298599	18300295
Al0209		HDisagree on Clementine haploid genotype	-	-	-	-	-	-		Ciclev10008628m	scaffold_1	18298599	18300295	C_unshiu_00548:mRNA_21.1	C_unshiu_00548	168151	169460	Hypothetical protein			KmG-01	37.230	JtR-01S	88.382
Af1424			-	-	-	-	-	-		Ciclev10008953m	scaffold_1	18688873	18690138	C_unshiu_00137:mRNA_44.1	C_unshiu_00137	354434	355481	CFE protein	AGI-01	43.613
Af1637			-	-	-	-	-	-		Ciclev10008007m	scaffold_1	18896164	18901623
Tf0327			-	-	-	-	-	-		Ciclev10009213m	scaffold_1	19056291	19058412
Af1234			-	-	-	-	-	-		Ciclev10007572m	scaffold_1	19975332	19979144
Cp0067			O	-	-	-	-	-		Ciclev10009235m	scaffold_1	20056926	20059223
Lp0230			O	-	-	-	-	-		Ciclev10009651m	scaffold_1	20094575	20097443
Al0631			-	-	-	-	-	-		Ciclev10008689m	scaffold_1	20096297	20101958
Cp2154			-	-	-	-	-	-	SI164	Ciclev10009584m	scaffold_1	20462860	20465557	C_unshiu_00670:mRNA_8.1	C_unshiu_00670	44502	47121	50S ribosomal protein L24, chloroplastic
Tf0247			-	-	-	-	-	-		Ciclev10009354m	scaffold_1	20550792	20553673
Tf0041			-	-	-	-	-	-		Ciclev10009354m	scaffold_1	20550792	20553673
Tf0058			-	-	-	-	-	-	SI257	Ciclev10009065m	scaffold_1	20885102	20889283	C_unshiu_00395:mRNA_8.2	C_unshiu_00395	50978	54866	Fertilization-independent endosperm protein	AGI-01	46.623
Al0522			-	-	-	-	-	-		Ciclev10008765m	scaffold_1	21082902	21086082
Bf0026			-	-	-	-	-	-		Ciclev10008765m	scaffold_1	21082902	21086082	C_unshiu_00487:mRNA_12.1	C_unshiu_00487	113166	115416	Thiazole biosynthetic enzyme	AGI-01	43.164							RP-01	56.137
If0214			-	-	-	-	-	-		Ciclev10009906m	scaffold_1	21464732	21466099
Af1565			-	-	-	-	-	-		Ciclev10008210m	scaffold_1	21875022	21879839
Al0215		OOthers	-	-	-	-	-	-		Ciclev10007304m	scaffold_1	21918726	21922966	C_unshiu_00595:mRNA_18.1	C_unshiu_00595	85575	88636	Disease resistance protein	AGI-01	38.255
Tf0255			-	-	-	-	-	-		Ciclev10009486m	scaffold_1	22111808	22116666
Af1533			-	-	-	-	-	-		Ciclev10009600m	scaffold_1	22118203	22120791
Ov0110			-	-	-	-	-	-		Ciclev10009770m	scaffold_1	22118203	22120791
Al0257	Al0257.k		-	-	-	-	-	-		Ciclev10008444m	scaffold_1	22407412	22409529
Af1146			-	-	-	-	-	-		Ciclev10008189m	scaffold_1	22593671	22599178
Cp1852			-	-	-	-	-	-		Ciclev10010530m	scaffold_1	22711668	22715696	C_unshiu_00103:mRNA_19.2	C_unshiu_00103	116559	121057	Cell differentiation protein rcd1	AGI-02	9.592
Fb0103		OOthers	O	-	-	-	-	-	SI155	Ciclev10008255m	scaffold_1	22758712	22761740	C_unshiu_00103:mRNA_27.1	C_unshiu_00103	160138	163082	GDP-L-galactose phosphorylase	AGI-01	30.703			JtR-01S	6.418
Al0510			-	-	-	-	-	-		Ciclev10008176m	scaffold_1	22792920	22795069
Af1303			-	-	-	-	-	-		Ciclev10009361m	scaffold_1	22810929	22812161
Af1356			-	-	-	-	-	-		Ciclev10009976m	scaffold_1	22837500	22839817
Bf0036		AAvailable marker	O	O	-	O	O	O		Ciclev10008751m	scaffold_1	22840947	22844111	C_unshiu_00103:mRNA_45.1	C_unshiu_00103	244231	250643	GrpE protein homolog	AGI-01	29.144							RP-01	46.445
Mf0045			-	-	-	-	-	-		Ciclev10009632m	scaffold_1	22844241	22846485
Mf0046			-	-	-	-	-	-		Ciclev10009632m	scaffold_1	22844241	22846485
Cp2158		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10007944m	scaffold_1	22847397	22852110	C_unshiu_00103:mRNA_47.1	C_unshiu_00103	254015	258614	Trigger factor type chaperone family protein	AGI-01	24.422
Bf0141			-	-	-	-	-	-		Ciclev10009364m	scaffold_1	22893476	22896534
Bf1207			-	-	-	-	-	-		Ciclev10010835m	scaffold_1	22912695	22913798	C_unshiu_00103:mRNA_59.1	C_unshiu_00103	319187	320041	Hypothetical protein	AGI-01
Cp2193			-	-	-	-	-	-		Ciclev10009415m	scaffold_1	22999424	23001838
Bf0013			O	-	-	-	-	-		Ciclev10008507m	scaffold_1	23111733	23116067	No					AGI-01								RP-01	47.360
Su0002			-	-	-	-	-	-		Ciclev10007245m	scaffold_1	23236312	23242718
Tf0230			-	-	-	-	-	-	SI140	Ciclev10008206m	scaffold_1	23463843	23470911	C_unshiu_00338:mRNA_22.1	C_unshiu_00338	163174	169978	NAD-dependent protein deacetylase SRT1
Tf0406		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10008206m	scaffold_1	23463843	23470911	C_unshiu_00338:mRNA_22.1	C_unshiu_00338	163174	169978	NAD-dependent protein deacetylase SRT1	AGI-01	28.515
Fb0237			-	-	-	-	-	-		Ciclev10007227m	scaffold_1	23487200	23497316	C_unshiu_00338:mRNA_20.1	C_unshiu_00338	134033	144369	Hypothetical protein	AGI-01	28.325
Bf0226		MDisagree by Marco analysis	O	-	-	-	-	-		Ciclev10008869m	scaffold_1	23654785	23658857	C_unshiu_00175:mRNA_30.1	C_unshiu_00175	321759	325671	SEC14 cytosolic factor	AGI-08	63.341
Af1554			-	-	-	-	-	-		Ciclev10009386m	scaffold_1	23753759	23756754	C_unshiu_00080:mRNA_59.1	C_unshiu_00080	491826	492778	Protein CWC15	AGI-01	28.775
Al0636		AAvailable marker	O	-	-	O	O	O	SI313	Ciclev10007493m	scaffold_1	23776796	23782088	C_unshiu_00080:mRNA_56.1	C_unshiu_00080	464290	469444	WW domain-containing protein	AGI-01	27.489	KmG-01	25.751	JtR-01S	63.210	NAT-01S	12.652	RP-01	48.896
Af1535			-	-	-	-	-	-		Ciclev10007633m	scaffold_1	23814115	23817728
Cp1614			-	-	-	-	-	-		Ciclev10008763m	scaffold_1	23876791	23880665
Af1467			-	-	-	-	-	-		Ciclev10008651m	scaffold_1	24171632	24175378	C_unshiu_00047:mRNA_19.1	C_unshiu_00047	116658	120038	Putative amino acid permease 7	AGI-01	29.784
Lp0110			-	-	-	-	-	-		Ciclev10009769m	scaffold_1	24271753	24272644
Tf0049			-	-	-	-	-	-	SI328	Ciclev10008919m	scaffold_1	24273993	24277800	C_unshiu_00047:mRNA_33.1	C_unshiu_00047	212549	221653	WD domain protein-like	AGI-01	26.841
Tf0274			-	-	-	-	-	-		Ciclev10008979m	scaffold_1	24354877	24358736
Af1004			-	-	-	-	-	-		Ciclev10008926m	scaffold_1	24426760	24434342
Lp0113			-	-	-	-	-	-		Ciclev10007510m	scaffold_1	24480591	24484723
Lp0134			-	-	-	-	-	-		Ciclev10007510m	scaffold_1	24480591	24484723
Lp0204			-	-	-	-	-	-		Ciclev10008687m	scaffold_1	24523400	24526186
Af1571			-	-	-	-	-	-		Ciclev10010323m	scaffold_1	24533064	24536628
Ks9001			-	-	-	-	-	-		Ciclev10008207m	scaffold_1	24548109	24552107	C_unshiu_00047:mRNA_72.1	C_unshiu_00047	475125	488565	Inter-alpha-trypsin inhibitor heavy chain-related isoform 1	AGI-01	27.192			JtR-01S	61.287
Af1173			-	-	-	-	-	-		Ciclev10009205m	scaffold_1	24591598	24593689
Af1695			-	-	-	-	-	-		Ciclev10008653m	scaffold_1	24619126	24621953
Al0027			-	-	-	-	-	-		Ciclev10009909m	scaffold_1	24787600	24788444
Gn0011			-	-	-	-	-	-		Ciclev10007488m	scaffold_1	24814539	24819264	C_unshiu_00341:mRNA_12.1	C_unshiu_00341	85182	89905	Sucrose synthase			KmG-01	21.459
Tf0168		AAvailable marker	O	O	-	O	O	O	SI175	Ciclev10007563m	scaffold_1	24898769	24905716	C_unshiu_00341:mRNA_22.1	C_unshiu_00341	170777	178753	AT-rich interactive domain-containing protein 4	AGI-01	25.752
Vt0006			-	-	-	-	-	-		Ciclev10010149m	scaffold_1	24914885	24923422
Af1624			-	-	-	-	-	-		Ciclev10007512m	scaffold_1	24924416	24934675
Wy0028		AAvailable marker	-	-	-	-	O	O		Ciclev10007806m	scaffold_1	25001341	25004726	C_unshiu_00150:mRNA_3.1	C_unshiu_00150	18652	22079	Probable pectinesterase/pectinesterase inhibitor 61	AGI-01	26.171	KmG-01
Af1350			-	-	-	-	-	-		Ciclev10008817m	scaffold_1	25017748	25021583
Af2318			-	-	-	-	-	-		Ciclev10008753m	scaffold_1	25227978	25233897
Af1883			-	-	-	-	-	-		Ciclev10008999m	scaffold_1	25255758	25259340
Fb0143			-	-	-	-	-	-	SI361	Ciclev10007397m	scaffold_1	25283807	25291472	C_unshiu_00150:mRNA_43.1	C_unshiu_00150	325164	333089	LRR receptor-like serine/threonine-protein kinase ERL1	AGI-01	26.176							RP-01	64.368
Af3215			-	-	-	-	-	-		Ciclev10009264m	scaffold_1	25322078	25323384
Af2001			-	-	-	-	-	-		Ciclev10007327m	scaffold_1	25337687	25347002
Gn0042			-	-	-	-	-	-		Ciclev10009742m	scaffold_1	25370176	25371445	C_unshiu_00498:mRNA_21.1	C_unshiu_00498	140388	142383	Deficiens					JtR-08	6.490
Tf0307		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10009286m	scaffold_1	25395688	25397278	C_unshiu_00442:mRNA_24.1	C_unshiu_00442	209015	209831	Myb domain protein 5	AGI-01	23.266
Mf0025			-	-	-	-	-	-		Ciclev10009756m	scaffold_1	25592494	25593617
Mf0086		AAvailable marker	O	-	-	-	O	O	SI220,SI315	Ciclev10009756m	scaffold_1	25592494	25593617	C_unshiu_00066:mRNA_75.1	C_unshiu_00066	500992	501833	17.9 kDa class II heat shock protein	AGI-01	26.428	KmG-01	19.692	JtR-01S	57.666			RP-01	69.936
Gmom12			-	-	-	-	-	-		Ciclev10009761m	scaffold_1	25604509	25605857
Af1084			-	-	-	-	-	-		Ciclev10008467m	scaffold_1	25716862	25720071	C_unshiu_00066:mRNA_57.1	C_unshiu_00066	369928	382143	Hypothetical protein	AGI-01	24.643
Al0235			-	-	-	-	-	-		Ciclev10009395m	scaffold_1	25761570	25764926
Ov0319			-	-	-	-	-	-		Ciclev10009395m	scaffold_1	25761570	25764926	C_unshiu_00066:mRNA_53.1	C_unshiu_00066	333477	336681	Ubiquitin system component Cue protein			KmG-032	19.158
Af1094			-	-	-	-	-	-		Ciclev10009395m	scaffold_1	25761570	25764926	C_unshiu_00066:mRNA_53.1	C_unshiu_00066	333477	336681	Ubiquitin system component Cue protein	AGI-01	30.175
Cp1998		AAvailable marker	-	-	-	-	-	O		Ciclev10009395m	scaffold_1	25761570	25764926	C_unshiu_00066:mRNA_53.1	C_unshiu_00066	333477	336681	Ubiquitin system component Cue protein
Cp1941			-	-	-	-	-	-		Ciclev10007519m	scaffold_1	25798690	25801889
Lp0025			-	-	-	-	-	-		Ciclev10009567m	scaffold_1	25816949	25818472
Lp0211			O	-	-	-	-	-		Ciclev10009567m	scaffold_1	25816949	25818472	C_unshiu_00066:mRNA_48.1	C_unshiu_00066	279404	280861	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein isoform 1	AGI-01	30.175							RP-01	24.533
Gn0017			-	-	-	-	-	-		Ciclev10007311m	scaffold_1	25880824	25887976	C_unshiu_00005:mRNA_103.1	C_unshiu_00005	841899	847089	Sucrose phosphate synthase	AGI-01	30.293	KmG-01	17.862
Af1359			-	-	-	-	-	-		Ciclev10007524m	scaffold_1	25987803	25992258
Lp0237	Lp0237.k		-	-	-	-	-	-		Ciclev10007524m	scaffold_1	25987803	25992258	C_unshiu_00066:mRNA_23.1	C_unshiu_00066	112710	117006	Pyrophosphate-energized vacuolar membrane proton pump	AGI-01	29.815	KmG-01	13.444	JtR-01S	57.629	NAT-01S	8.967
Af1364			-	-	-	-	-	-		Ciclev10007962m	scaffold_1	26026278	26032641
Al0228			-	-	-	-	-	-		Ciclev10009018m	scaffold_1	26206063	26208427	C_unshiu_00315:mRNA_25.1	C_unshiu_00315	212819	220361	Serine/threonine-protein kinase HT1					JtR-034	7.115
Af1218			-	-	-	-	-	-		Ciclev10009894m	scaffold_1	26237405	26239791
Al0407		AAvailable marker	O	-	-	-	O	O		Ciclev10009315m	scaffold_1	26576059	26578193	C_unshiu_00131:mRNA_17.1	C_unshiu_00131	121152	123183	60S ribosomal protein L7	AGI-01	31.240	KmG-01	15.673	JtR-01S	57.666			RP-01	79.425
If0008		AAvailable marker	-	-	-	-	-	O		Ciclev10009315m	scaffold_1	26576059	26578193	No							KmG-01	15.635	JtR-01S	57.666
Tf0163		AAvailable marker	O	-	-	-	O	O		Ciclev10010423m	scaffold_1	26740822	26744016	C_unshiu_00105:mRNA_35.1	C_unshiu_00105	316978	320206	RING/FYVE/PHD zinc finger superfamily protein, putative isoform 1	AGI-01	31.240
Mf0062			-	-	-	-	-	-		Ciclev10009010m	scaffold_1	26773396	26776856
Al0403			-	-	-	-	-	-		Ciclev10007559m	scaffold_1	26802787	26810465
Tf0033			-	-	-	-	-	-		Ciclev10008659m	scaffold_1	26872071	26875269
Tf0033.2			-	-	-	-	-	-		Ciclev10008659m	scaffold_1	26872071	26875269
Cp2073			-	-	-	-	-	-		Ciclev10008749m	scaffold_1	26872500	26875269
Af1269			-	-	-	-	-	-		Ciclev10009375m	scaffold_1	27043124	27045483
Af1223			-	-	-	-	-	-		Ciclev10009839m	scaffold_1	27111412	27114276	C_unshiu_00347:mRNA_8.1	C_unshiu_00347	66555	79401	Flavin-binding kelch domain F box protein	AGI-09	97.668
Tf0193			-	-	-	-	-	-		Ciclev10007849m	scaffold_1	27167271	27171073
Bf0033			-	-	-	-	-	-	SI356,SI379	Ciclev10007537m	scaffold_1	27204998	27211059	C_unshiu_00347:mRNA_22.1	C_unshiu_00347	166830	172467	NADPH--hemoprotein reductase	AGI-01	32.408							RP-01	85.146
Tf0124			-	-	-	-	-	-		Ciclev10007717m	scaffold_1	27457358	27462893	C_unshiu_00237:mRNA_37.1	C_unshiu_00237	259818	273281	Dethiobiotin synthase	AGI-01	34.062
Tf0305			-	-	-	-	-	-		Ciclev10008366m	scaffold_1	27554897	27556656
Cp2176			-	-	-	-	-	-		Ciclev10008323m	scaffold_1	27640636	27648110
Cp0632		AAvailable marker	O	-	-	-	O	O		Ciclev10007941m	scaffold_1	27698934	27703620	C_unshiu_00237:mRNA_7.1	C_unshiu_00237	40930	45531	Protein translocase subunit SecY	AGI-08	56.724
Gmom31			-	-	-	-	-	-		Ciclev10008052m	scaffold_1	27783419	27789937
Af1503			-	-	-	-	-	-		Ciclev10009155m	scaffold_1	27943663	27947071
Af1407			-	-	-	-	-	-		Ciclev10008782m	scaffold_1	28220637	28224080
Tf0449		OOthers	O	-	-	-	-	-		Ciclev10009165m	scaffold_1	28254307	28257305	C_unshiu_01997:mRNA_4.1	C_unshiu_01997	32539	35330	Translation initiation factor IF-3	AGI-01	0.404
Af1372			-	-	-	-	-	-		Ciclev10009165m	scaffold_1	28254307	28257305
Tf0161			-	-	-	-	-	-		Ciclev10009165m	scaffold_1	28254307	28257305
Cp0672			-	-	-	-	-	-		Ciclev10007769m	scaffold_1	28262202	28267878	C_unshiu_00005:mRNA_26.1	C_unshiu_00005	170218	174432	Putative eukaryotic translation initiation factor 4 gamma	AGI-01	101.472
Wy0026		HDisagree on Clementine haploid genotype	-	-	-	-	-	-		Ciclev10010857m	scaffold_1	28321342	28323314	C_unshiu_02224:mRNA_5.1	C_unshiu_02224	30176	31684	Hydroxycinnamoyl-CoA shikimate/quinate hydroxycinnamoyl transferase	AGI-01	35.518
Gn0084		DDominant marker	-	-	-	-	-	-		Ciclev10010857m	scaffold_1	28321342	28323314
Af3599			-	-	-	-	-	-		Ciclev10008985m	scaffold_1	28330810	28332669
Cp0671		AAvailable marker	-	-	-	-	O	O		Ciclev10009489m	scaffold_1	28353948	28356507	C_unshiu_00590:mRNA_26.1	C_unshiu_00590	165626	168046	UPF0133 protein	AGI-01	36.113
Cp2180			-	-	-	-	-	-		Ciclev10008335m	scaffold_1	28385660	28388620
Af1262			-	-	-	-	-	-		Ciclev10009571m	scaffold_1	28424576	28427136
Lp0227			-	-	-	-	-	-		Ciclev10009468m	scaffold_1	28429428	28433154
Tf0077			O	-	-	-	-	-	SI135	Ciclev10008135m	scaffold_1	28433972	28437921	C_unshiu_00590:mRNA_15.1	C_unshiu_00590	86430	90131	WRKY	AGI-01	34.814
Tf0211			-	-	-	-	-	-		Ciclev10008192m	scaffold_1	28607325	28610917
Af1071			-	-	-	-	-	-		Ciclev10008192m	scaffold_1	28607325	28610917
Tf0389			-	-	-	-	-	-		Ciclev10008192m	scaffold_1	28607325	28610917
Lp0114			-	-	-	-	-	-		Ciclev10008315m	scaffold_1	28623624	28626008
Tf0222			-	-	-	-	-	-		Ciclev10008882m	scaffold_1	28782169	28786731
Tf0291			-	-	-	-	-	-		Ciclev10008882m	scaffold_1	28782169	28786731
Cp1067			-	-	-	-	-	-		Ciclev10014572m	scaffold_2	188504	192741
Tf0264		AAvailable marker	O	-	-	-	O	O		Ciclev10015873m	scaffold_2	248256	250675	C_unshiu_00109:mRNA_29.1	C_unshiu_00109	175776	179005	GAN	AGI-06	103.728
Ov0429	Ov0429.k		-	-	-	-	-	-		Ciclev10015338m	scaffold_2	290799	294122
Wy0049	Wy0049.k		-	-	-	-	-	-		Ciclev10015338m	scaffold_2	290799	294122
Ks9005		AAvailable marker	O	-	-	-	O	O	SI342	Ciclev10015338m	scaffold_2	290799	294122	C_unshiu_00109:mRNA_36.1	C_unshiu_00109	219070	222359	TRNA-splicing ligase RtcB	AGI-02	13.646	KmG-02	23.647					RP-02	16.986
Af1429			-	-	-	-	-	-		Ciclev10016644m	scaffold_2	390474	395075
Af1617			-	-	-	-	-	-		Ciclev10014836m	scaffold_2	434537	439663
Af1683			-	-	-	-	-	-		Ciclev10016632m	scaffold_2	475374	478428
Fb0304			-	-	-	-	-	-		Ciclev10016371m	scaffold_2	479437	484203
Af1692			-	-	-	-	-	-		Ciclev10014767m	scaffold_2	691427	698055
Mf0070		MDisagree by Marco analysis	O	-	-	-	-	-	SI017	Ciclev10017346m	scaffold_2	3067337	3069249	C_unshiu_00246:mRNA_8.1	C_unshiu_00246	68251	69988	Hypothetical protein	AGI-07	36.616			JtR-07	52.611			RP-07	19.079
Bf0225			-	-	-	-	-	-		Ciclev10016071m	scaffold_2	3460370	3462174
If0202			-	-	-	-	-	-		Ciclev10016037m	scaffold_2	3777397	3781539
Ov0425		Bno homozygous cultivar with minor allele	-	-	-	-	-	-	SI051,SI291,SI351,SI371	Ciclev10015385m	scaffold_2	4021167	4024377	C_unshiu_00992:mRNA_13.1	C_unshiu_00992	79008	82132	DnaJ	AGI-07	41.317							RP-07	25.534
Ov0426	Ov0425.2		-	-	-	-	-	-		Ciclev10015385m	scaffold_2	4021167	4024377
Lp0007			-	-	-	-	-	-		Ciclev10015385m	scaffold_2	4021167	4024377
Cp1044		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10015927m	scaffold_2	4354278	4358516	C_unshiu_00062:mRNA_38.1	C_unshiu_00062	326045	332995	Iron-sulfur cluster formation ABC transporter ATP-binding subunit	AGI-07	39.420
Gmom02			-	-	-	-	-	-		Ciclev10015097m	scaffold_2	4367068	4371625
Al0646			-	-	-	-	-	-		Ciclev10015589m	scaffold_2	4461151	4463605
Af1161			-	-	-	-	-	-		Ciclev10017060m	scaffold_2	4495596	4498439
Af1668			-	-	-	-	-	-		Ciclev10016828m	scaffold_2	4660424	4661352
Ov0307		OOthers	-	-	-	-	-	-		Ciclev10015790m	scaffold_2	4937047	4940138
Cp0592			-	-	-	-	-	-		Ciclev10015082m	scaffold_2	5167853	5171721
Lp0132			-	-	-	-	-	-		Ciclev10014204m	scaffold_2	5469050	5475142
Ov0120			-	-	-	-	-	-		Ciclev10014574m	scaffold_2	5533591	5538729
Cp1257			-	-	-	-	-	-		Ciclev10014209m	scaffold_2	5582927	5587253
Tf0191			-	-	-	-	-	-		Ciclev10015847m	scaffold_2	5821401	5825173
Af1436			-	-	-	-	-	-		Ciclev10014858m	scaffold_2	5975367	5977280
Bf0147			-	-	-	-	-	-	SI165	Ciclev10014858m	scaffold_2	5975367	5977280	C_unshiu_00260:mRNA_18.1	C_unshiu_00260	124629	126502	Flavonoid 3'-monooxygenase									RP-06.1	47.841
If0001			-	-	-	-	-	-		Ciclev10015414m	scaffold_2	6319446	6320851
Af1636			-	-	-	-	-	-		Ciclev10016216m	scaffold_2	6611813	6619116	C_unshiu_00072:mRNA_53.1	C_unshiu_00072	416072	423443	Zinc transporter ZTP29	AGI-06	150.228
Bf0161			-	-	-	-	-	-	SI089,SI348	Ciclev10015189m	scaffold_2	6658003	6660691	C_unshiu_00072:mRNA_47.1	C_unshiu_00072	364436	365812	Sequence-specific DNA binding transcription factors	AGI-06	144.849
Cp1851			-	-	-	-	-	-		Ciclev10014769m	scaffold_2	6840743	6844063
Af1450			-	-	-	-	-	-		Ciclev10014769m	scaffold_2	6840743	6844063
Af1698			-	-	-	-	-	-		Ciclev10016574m	scaffold_2	6880111	6883726
Tf0018.2			-	-	-	-	-	-		Ciclev10015806m	scaffold_2	6900992	6905827
Tf0052			-	-	-	-	-	-		Ciclev10015808m	scaffold_2	6901350	6905827
Cp1779			-	-	-	-	-	-		Ciclev10014382m	scaffold_2	6927081	6932080
Af1699			-	-	-	-	-	-		Ciclev10014381m	scaffold_2	6927081	6932080
Af1520			-	-	-	-	-	-		Ciclev10015124m	scaffold_2	7360380	7367946
Cp0046			-	-	-	-	-	-		Ciclev10014361m	scaffold_2	7429310	7438670
Bf0116			-	-	-	-	-	-	SI260	Ciclev10015490m	scaffold_2	7662753	7667440	C_unshiu_00729:mRNA_11.1	C_unshiu_00729	81415	86474	Aminotransferase 2	AGI-06	133.800							RP-06.1	28.601
Bf0414			-	-	-	-	-	-		Ciclev10014446m	scaffold_2	7719550	7723396
Af1418			-	-	-	-	-	-		Ciclev10017186m	scaffold_2	8060850	8062464
Ks9004			-	-	-	-	-	-		Ciclev10016351m	scaffold_2	8406645	8407971
Tf0063			-	-	-	-	-	-		Ciclev10014617m	scaffold_2	8418789	8421898
Ks9003		AAvailable marker	-	-	-	-	-	O		Ciclev10014733m	scaffold_2	8436110	8440408	C_unshiu_00494:mRNA_1.1	C_unshiu_00494	7014	11146	Ascorbate oxidase			KmG-09	19.560	JtR-09S	5.836
Cp1945			-	-	-	-	-	-		Ciclev10014186m	scaffold_2	8458209	8466681
Al0238			-	-	-	-	-	-		Ciclev10017077m	scaffold_2	8494369	8496454
Vt0035			-	-	-	-	-	-		Ciclev10016383m	scaffold_2	8510712	8514409
Cp0701			-	-	-	-	-	-		Ciclev10015579m	scaffold_2	8539410	8545538
Vt0023			-	-	-	-	-	-		Ciclev10016079m	scaffold_2	8712236	8714558
Af1129			-	-	-	-	-	-		Ciclev10014531m	scaffold_2	8727346	8730038
Tf0207			-	-	-	-	-	-		Ciclev10014026m	scaffold_2	9008920	9021876
Tf0385			-	-	-	-	-	-		Ciclev10014026m	scaffold_2	9008920	9021876
Af1660			-	-	-	-	-	-		Ciclev10015583m	scaffold_2	9164804	9166682
Bf0212			-	-	-	-	-	-	SI332	Ciclev10016442m	scaffold_2	9206686	9211152	C_unshiu_00004:mRNA_52.2	C_unshiu_00004	401860	406444	Carbonate dehydratase	AGI-06	117.593
Cp0962			-	-	-	-	-	-		Ciclev10016442m	scaffold_2	9206686	9211152
Tf0455		OOthers	O	-	-	-	-	-		Ciclev10017004m	scaffold_2	9338651	9341271	C_unshiu_00067:mRNA_10.1	C_unshiu_00067	74696	88429	Hypothetical protein	AGI-06	114.172
Tf0042.2		AAvailable marker	O	-	-	-	-	O		Ciclev10016820m	scaffold_2	9338651	9341271	C_unshiu_00067:mRNA_10.1	C_unshiu_00067	74696	88429	Hypothetical protein
Af1590			-	-	-	-	-	-		Ciclev10017502m	scaffold_2	9348292	9351074
Cp1880		AAvailable marker	-	-	-	-	-	O		Ciclev10016235m	scaffold_2	9351630	9354621	C_unshiu_00067:mRNA_9.1	C_unshiu_00067	71252	74672	Peptide deformylase
Af1507a			-	-	-	-	-	-		Ciclev10017265m	scaffold_2	9454517	9456360
Gn0085			-	-	-	-	-	-		Ciclev10014816m	scaffold_2	9457192	9463218
Cp0458			-	-	-	-	-	-		Ciclev10014634m	scaffold_2	9744574	9752276
Al0244			-	-	-	-	-	-		Ciclev10015497m	scaffold_2	9849133	9852098
Cp0077			O	-	-	-	-	-		Ciclev10015497m	scaffold_2	9849133	9852098	C_unshiu_00049:mRNA_29.1	C_unshiu_00049	210181	212829	Altered inheritance of mitochondria protein 32	AGI-08	54.867
Lp0124			-	-	-	-	-	-		Ciclev10015245m	scaffold_2	10087523	10092758
Af1539			-	-	-	-	-	-		Ciclev10016688m	scaffold_2	10097308	10100347
Af1542			-	-	-	-	-	-		Ciclev10015820m	scaffold_2	10424779	10427904
Af1033			O	-	-	-	-	-		Ciclev10016063m	scaffold_2	10456899	10459385
Su0003			-	-	-	-	-	-		Ciclev10016063m	scaffold_2	10456899	10459385
Tf0203			-	-	-	-	-	-	SI121	Ciclev10014039m	scaffold_2	10459593	10472483	C_unshiu_00403:mRNA_13.1	C_unshiu_00403	88988	102135	Homeodomain transcriptional regulator
Tf0381			-	-	-	-	-	-		Ciclev10014039m	scaffold_2	10459593	10472483
Lp0136			-	-	-	-	-	-		Ciclev10014127m	scaffold_2	10500879	10504450
Af1095			-	-	-	-	-	-		Ciclev10014502m	scaffold_2	10695424	10700095
Af1363			-	-	-	-	-	-		Ciclev10015634m	scaffold_2	10931515	10935724
Ov0422		AAvailable marker	-	-	-	-	-	O		Ciclev10016314m	scaffold_2	11071587	11074479	C_unshiu_00184:mRNA_33.1	C_unshiu_00184	295953	298736	14-3-3-like protein GF14 mu									RP-06.1	28.576
Cp0747			-	-	-	-	-	-		Ciclev10015418m	scaffold_2	11084960	11088767	C_unshiu_00184:mRNA_32.1	C_unshiu_00184	282295	285277	ATP synthase protein I	AGI-09	85.816
Fb0124			-	-	-	-	-	-	SI167,SI212	Ciclev10014164m	scaffold_2	11088808	11095416	C_unshiu_00184:mRNA_31.1	C_unshiu_00184	275231	281575	Phosphoenolpyruvate carboxylase
Af0003			-	-	-	-	-	-		Ciclev10017107m	scaffold_2	11373565	11374539
Cp0900			-	-	-	-	-	-		Ciclev10017707m	scaffold_2	11381917	11385787
Af1103			-	-	-	-	-	-		Ciclev10018380m	scaffold_2	11393303	11394035
Cp0028			O	-	-	-	-	-		Ciclev10014471m	scaffold_2	11418331	11422116
Cp1885		AAvailable marker	-	-	-	-	-	O		Ciclev10014471m	scaffold_2	11418331	11422116	C_unshiu_01218:mRNA_4.1	C_unshiu_01218	14084	22447	ATP-dependent zinc metalloprotease FTSH 2, chloroplastic
Af1404			-	-	-	-	-	-		Ciclev10014471m	scaffold_2	11418331	11422116
Cp0745			-	-	-	-	-	-		Ciclev10014471m	scaffold_2	11418331	11422116
Em0004	Fb1532.em		-	-	-	-	-	-		Ciclev10015815m	scaffold_2	11585699	11587422	C_unshiu_01211:mRNA_9.1	C_unshiu_01211	67756	69149	Transparent testa glabra 1	AGI-02	11.835
Cp1213			-	-	-	-	-	-		Ciclev10015476m	scaffold_2	11598999	11601307
Cp0080			O	-	-	-	-	-		Ciclev10015476m	scaffold_2	11598999	11601307
Al0028			-	-	-	-	-	-		Ciclev10016123m	scaffold_2	11604956	11606340	C_unshiu_00957:mRNA_11.1	C_unshiu_00957	38508	39910	Xyloglucan endotransglucosylase/hydrolase protein A									RP-06.1	28.573
Ov0418			-	-	-	-	-	-		Ciclev10015900m	scaffold_2	11863906	11865549
Ov0021			-	-	-	-	-	-		Ciclev10015535m	scaffold_2	11863906	11865549
Fb1916			-	-	-	-	-	-	SI336	Ciclev10016275m	scaffold_2	12043969	12046230	C_unshiu_00026:mRNA_12.1	C_unshiu_00026	110679	112686	Histone-lysine N-methyltransferase, H3 lysine-9 specific SUVH4									RP-06.1	24.027
Cp1216		AAvailable marker	-	-	-	-	O	O		Ciclev10017113m	scaffold_2	12112790	12113903	C_unshiu_00026:mRNA_6.1	C_unshiu_00026	46658	47677	CCR protein	AGI-06	76.905
Bf0001			-	-	-	-	-	-		Ciclev10016890m	scaffold_2	12281395	12282562
Af1074			-	-	-	-	-	-		Ciclev10015644m	scaffold_2	12308761	12314225
Af1546			-	-	-	-	-	-		Ciclev10016821m	scaffold_2	12406078	12408794
Af1318			-	-	-	-	-	-		Ciclev10016868m	scaffold_2	12549543	12550712
If0216		OOthers	O	-	-	-	-	-	SI174	Ciclev10015257m	scaffold_2	12876952	12881843	C_unshiu_01838:mRNA_2.1	C_unshiu_01838	23594	31186	Hypothetical protein	AGI-09	74.076	KmG-01	26.420	JtR-01S	66.382			RP-09	29.224
Af1602			-	-	-	-	-	-		Ciclev10017370m	scaffold_2	13350082	13351899
Cp2043			-	-	-	-	-	-		Ciclev10016825m	scaffold_2	13441813	13443080
Af1229			-	-	-	-	-	-		Ciclev10016825m	scaffold_2	13441813	13443080
Af1597			-	-	-	-	-	-		Ciclev10016480m	scaffold_2	13482005	13485923
Bf0159			-	-	-	-	-	-	SI074	Ciclev10016059m	scaffold_2	13502268	13505597	C_unshiu_01990:mRNA_1.1	C_unshiu_01990	10471	13748	DCD (Development and cell death) domain protein									RP-06.1	23.326
Cp1221			-	-	-	-	-	-		Ciclev10016867m	scaffold_2	13627656	13629444
Fb0301		AAvailable marker	-	-	-	-	O	O	SI053	Ciclev10014804m	scaffold_2	14143537	14146003	C_unshiu_00466:mRNA_1.1	C_unshiu_00466	13811	16178	4-coumarate:coenzyme A ligase 4	AGI-06	92.727	KmG-06						RP-06.1	16.627
Cp1875			-	-	-	-	-	-		Ciclev10014955m	scaffold_2	14148392	14153974
Af1310			-	-	-	-	-	-		Ciclev10016380m	scaffold_2	14481402	14484929
Af1677			-	-	-	-	-	-		Ciclev10015358m	scaffold_2	15485437	15488234
Ov0525		ULess informative for main cultivars	O	-	-	-	-	-		Ciclev10015260m	scaffold_2	15833142	15836770	C_unshiu_01875:mRNA_4.1	C_unshiu_01875	35983	39196	ADP/ATP translocase 1	AGI-06	91.522							SA-06	27.092
Al0519		DDominant marker	O	-	-	-	-	-		Ciclev10015260m	scaffold_2	15833142	15836770	No													RP-06.1
Ov0003			-	-	-	-	-	-		Ciclev10015260m	scaffold_2	15833142	15836770
Af1293			-	-	-	-	-	-		Ciclev10014998m	scaffold_2	16597796	16602257
Cp0015			-	-	-	-	-	-		Ciclev10016927m	scaffold_2	17390389	17391229
Tf0378			-	-	-	-	-	-		Ciclev10014909m	scaffold_2	19028389	19031661
Cp2151			-	-	-	-	-	-		Ciclev10016218m	scaffold_2	19918574	19923588
Af1153			-	-	-	-	-	-		Ciclev10015940m	scaffold_2	20124170	20127095
Af1682			-	-	-	-	-	-		Ciclev10016706m	scaffold_2	20153460	20156597
Af1671			-	-	-	-	-	-		Ciclev10016129m	scaffold_2	21057080	21059316
Bf0207			-	-	-	-	-	-		Ciclev10014190m	scaffold_2	22005783	22011411
Cp0021			O	-	-	-	-	-		Ciclev10015229m	scaffold_2	22305297	22307562
Lp0028			-	-	-	-	-	-		Ciclev10014842m	scaffold_2	22362548	22366644
Lp0141			-	-	-	-	-	-		Ciclev10016648m	scaffold_2	22386727	22388706
Cp1617			-	-	-	-	-	-		Ciclev10015460m	scaffold_2	22436685	22438478
Vt0018			-	-	-	-	-	-		Ciclev10016206m	scaffold_2	22471208	22474774
Bf0122			-	-	-	-	-	-		Ciclev10016206m	scaffold_2	22471208	22474774
Al0615			-	-	-	-	-	-		Ciclev10014304m	scaffold_2	22607375	22611126
Fb1121	Fb1121.lg		-	-	-	-	-	-		Ciclev10014991m	scaffold_2	22635764	22640239
Fb0296			-	-	-	-	-	-		Ciclev10014378m	scaffold_2	22689124	22695586	C_unshiu_01495:mRNA_8.1	C_unshiu_01495	60336	62557	Hypothetical protein									RP-06.1	10.382
Af1567			-	-	-	-	-	-		Ciclev10016663m	scaffold_2	22759341	22763218
Af1111			-	-	-	-	-	-		Ciclev10015086m	scaffold_2	23021193	23023457	C_unshiu_00172:mRNA_31.1	C_unshiu_00172	270783	273047	Glucan endo-1,3-beta-glucosidase 13	AGI-06	83.445
Af1411			-	-	-	-	-	-		Ciclev10016646m	scaffold_2	23073191	23078049
Af1681			-	-	-	-	-	-		Ciclev10015215m	scaffold_2	23163673	23168238
Tf0101			-	-	-	-	-	-		Ciclev10015215m	scaffold_2	23163673	23168238
Af1502			-	-	-	-	-	-		Ciclev10015770m	scaffold_2	23243926	23246266
Vt0033			-	-	-	-	-	-		Ciclev10016829m	scaffold_2	23695881	23697100
Al0427	Al0247.em		-	-	-	-	-	-		Ciclev10016829m	scaffold_2	23695881	23697100
Tf0114			-	-	-	-	-	-		Ciclev10015049m	scaffold_2	23826323	23829613
Fb1170			-	-	-	-	-	-		Ciclev10014845m	scaffold_2	23829862	23832918
Af1097			-	-	-	-	-	-		Ciclev10014845m	scaffold_2	23829862	23832918
Cp2092			-	-	-	-	-	-		Ciclev10014794m	scaffold_2	23859016	23862998
Cp1224			-	-	-	-	-	-		Ciclev10016280m	scaffold_2	23891814	23893095
Ov0403		AAvailable marker	O	-	-	-	O	O	SI136,SI298,SI325	Ciclev10016280m	scaffold_2	23891814	23893095	C_unshiu_00081:mRNA_50.1	C_unshiu_00081	296655	297936	Chlorophyll a/b binding protein	AGI-06	61.779	KmG-06	12.610	JtR-06S
Gn0083			-	-	-	-	-	-		Ciclev10016280m	scaffold_2	23891814	23893095
Cp0589			-	-	-	-	-	-		Ciclev10016280m	scaffold_2	23891814	23893095
Cp1501			-	-	-	-	-	-		Ciclev10017197m	scaffold_2	24336809	24337802
Cp0591			-	-	-	-	-	-		Ciclev10017197m	scaffold_2	24336809	24337802
Af1609			-	-	-	-	-	-		Ciclev10014451m	scaffold_2	24533044	24538470
Af1145			-	-	-	-	-	-		Ciclev10018013m	scaffold_2	24565857	24567752
Lp0229			O	-	-	-	-	-		Ciclev10015636m	scaffold_2	24637053	24639946	C_unshiu_00136:mRNA_24.1	C_unshiu_00136	221432	223640	ARM repeat superfamily protein									RP-06.1	25.198
Tf0134			-	-	-	-	-	-		Ciclev10015364m	scaffold_2	24667102	24672331
Af1026			O	-	-	-	-	-		Ciclev10016450m	scaffold_2	24690261	24692734	C_unshiu_00136:mRNA_33.1	C_unshiu_00136	278221	280719	Period circadian protein, putative isoform 1									RP-06.1	24.027
Cp0026			-	-	-	-	-	-		Ciclev10014741m	scaffold_2	24938686	24943643	C_unshiu_00472:mRNA_8.1	C_unshiu_00472	85278	89618	Putative ADP-glucose pyrophosphorylase small subunit	AGI-06	72.449
Fb0389			-	-	-	-	-	-		Ciclev10014121m	scaffold_2	25179668	25188103	C_unshiu_00087:mRNA_31.1	C_unshiu_00087	209767	218135	Putative pesticidal crystal cry8Ba-like	AGI-08	56.850
Cp1011			-	-	-	-	-	-		Ciclev10016354m	scaffold_2	25346439	25350875	C_unshiu_00087:mRNA_55.1	C_unshiu_00087	398683	402763	ZZ-type zinc finger-containing 3	AGI-09	115.692
Bf0167			-	-	-	-	-	-		Ciclev10014944m	scaffold_2	26011586	26016025
Tf0173			O	-	-	-	-	-		Ciclev10015413m	scaffold_2	26097343	26099320	C_unshiu_00259:mRNA_35.1	C_unshiu_00259	219790	227265	Hypothetical protein									RP-06.1	28.110
Af1564			-	-	-	-	-	-		Ciclev10015917m	scaffold_2	26206635	26210648
Al0635		AAvailable marker	-	-	-	-	O	O		Ciclev10015354m	scaffold_2	26435540	26438838	C_unshiu_00197:mRNA_27.1	C_unshiu_00197	251131	253300	GAGA-binding transcriptional activator	AGI-06	69.195	KmG-06	15.268	JtR-06S	1.903	NAT-06S	7.869
Al0635.2	Al0635.k		-	-	-	-	-	-		Ciclev10015354m	scaffold_2	26435540	26438838
Af1441			-	-	-	-	-	-		Ciclev10015354m	scaffold_2	26435540	26438838
Af1056			-	-	-	-	-	-		Ciclev10015905m	scaffold_2	26595972	26598955	C_unshiu_00262:mRNA_14.1	C_unshiu_00262	84573	87520	Purple acid phosphatase 3	AGI-06	66.320
Al0224		AAvailable marker	-	O	-	-	O	O		Ciclev10015872m	scaffold_2	26630154	26632900	C_unshiu_00262:mRNA_19.1	C_unshiu_00262	115955	118351	Probable xyloglucan endotransglucosylase/hydrolase protein 27	AGI-06	67.116	KmG-06	17.100	JtR-06S	3.805	NAT-06S	8.025	RP-06.1	28.576
Af1616			-	-	-	-	-	-		Ciclev10014317m	scaffold_2	26817593	26820324
Af1236			-	-	-	-	-	-		Ciclev10015450m	scaffold_2	26852381	26857537
Tf0366			-	-	-	-	-	-		Ciclev10015541m	scaffold_2	26890335	26894409
Fb1611			-	-	-	-	-	-	SI071	Ciclev10014570m	scaffold_2	27030188	27034752	No
Cp0431		AAvailable marker	O	-	-	-	O	O		Ciclev10015731m	scaffold_2	27084177	27089027	C_unshiu_00017:mRNA_35.1	C_unshiu_00017	248152	252850	E3 ubiquitin protein ligase RIE1	AGI-06	60.660
Al0602		AAvailable marker	-	-	-	-	-	O		Ciclev10017248m	scaffold_2	27141148	27141869	C_unshiu_00017:mRNA_42.1	C_unshiu_00017	304994	305523	Hypothetical protein			KmG-06	18.450	JtR-06S	3.805
Lp0203			-	-	-	-	-	-		Ciclev10015577m	scaffold_2	27167289	27171203
Mf0064			-	-	-	-	-	-		Ciclev10015846m	scaffold_2	27344587	27346090
Al0023			-	-	-	-	-	-		Ciclev10014721m	scaffold_2	27479907	27486732
Af1335			-	-	-	-	-	-		Ciclev10016822m	scaffold_2	27549660	27551146
Cp0459			-	-	-	-	-	-		Ciclev10016822m	scaffold_2	27549660	27551146	C_unshiu_00017:mRNA_86.1	C_unshiu_00017	707192	708314	NADH dehydrogenase-like complex L	AGI-06	74.140
Lp0104			-	-	-	-	-	-		Ciclev10017466m	scaffold_2	27579627	27581411
Wy0053	Wy0053.k		-	-	-	-	-	-		Ciclev10017466m	scaffold_2	27579627	27581411
Af1299			-	-	-	-	-	-		Ciclev10017055m	scaffold_2	27638163	27639131
Af1593			-	-	-	-	-	-		Ciclev10015971m	scaffold_2	27738397	27741912	C_unshiu_00745:mRNA_8.1	C_unshiu_00745	82265	85742	Prolactin regulatory element-binding protein, putative	AGI-06	61.501
Af1294			-	-	-	-	-	-		Ciclev10018252m	scaffold_2	27774863	27778271
Mf0096		OOthers	-	-	-	-	-	-	SI249,SI333	Ciclev10018252m	scaffold_2	27774863	27778271	C_unshiu_00745:mRNA_6.1	C_unshiu_00745	48150	62370	Hypothetical protein	AGI-06	60.007	KmG-06	22.141	JtR-06S	5.708	NAT-06S	10.082
Af1244b			-	-	-	-	-	-		Ciclev10016184m	scaffold_2	27779247	27785501
Wy0037			-	-	-	-	-	-		Ciclev10016309m	scaffold_2	28046592	28048907
Cp0564			-	-	-	-	-	-		Ciclev10015744m	scaffold_2	28189350	28194237
Cp0566			-	-	-	-	-	-		Ciclev10014450m	scaffold_2	28732941	28736344
Af1689			-	-	-	-	-	-		Ciclev10015519m	scaffold_2	28761649	28766750
Af1042			O	-	-	-	-	-		Ciclev10017429m	scaffold_2	28786444	28788097	No					AGI-06	55.700
Af1306			-	-	-	-	-	-		Ciclev10014843m	scaffold_2	28968668	28973736
Bf0200		OOthers	-	-	-	-	-	-	SI335	Ciclev10014367m	scaffold_2	29022433	29030724	C_unshiu_00022:mRNA_44.1	C_unshiu_00022	308324	316293	Glutamine-tRNA ligase / glutaminyl-tRNA synthetas, putative isoform 1
Af1312			-	-	-	-	-	-		Ciclev10014367m	scaffold_2	29022433	29030537	C_unshiu_00022:mRNA_44.1	C_unshiu_00022	308324	316293	Glutamine-tRNA ligase / glutaminyl-tRNA synthetas, putative isoform 1	AGI-06	37.883
Tf0035			-	-	-	-	-	-		Ciclev10016461m	scaffold_2	29047758	29049298
Wy0058	Wy0058.em		-	-	-	-	-	-		Ciclev10016274m	scaffold_2	29140509	29143804	C_unshiu_00022:mRNA_58.1	C_unshiu_00022	424974	428249	Plastid ribosomal protein L15
Ov0119			-	-	-	-	-	-		Ciclev10016788m	scaffold_2	29172772	29175757
Tf0343		AtAvailable marker	O	-	-	-	O	O		Ciclev10016587m	scaffold_2	29204680	29206501	C_unshiu_00022:mRNA_67.1	C_unshiu_00022	489282	490950	High mobility group B protein 7	AGI-06	44.393
Af1053			O	-	-	-	-	-		Ciclev10014664m	scaffold_2	29206818	29208977
Af1491a			-	-	-	-	-	-		Ciclev10017207m	scaffold_2	29258052	29260162
Af1174			-	-	-	-	-	-		Ciclev10014963m	scaffold_2	29314176	29319032
Bf0201			-	-	-	-	-	-		Ciclev10015180m	scaffold_2	29370560	29376244
Cp0758			-	-	-	-	-	-		Ciclev10015073m	scaffold_2	29452639	29459747
Af1494			-	-	-	-	-	-		Ciclev10017510m	scaffold_2	29644507	29646280
Cp0214		OOthers	-	-	-	-	-	-		Ciclev10016075m	scaffold_2	29732249	29735969	C_unshiu_00073:mRNA_25.1	C_unshiu_00073	178507	182191	MOSC domain-containing protein 2, mitochondrial	AGI-06	46.660
Af1283			-	-	-	-	-	-		Ciclev10016366m	scaffold_2	29757723	29762309
Cp1629			-	-	-	-	-	-		Ciclev10016703m	scaffold_2	29783148	29785224
Af1446			-	-	-	-	-	-		Ciclev10016974m	scaffold_2	30435790	30437278
If0009			-	-	-	-	-	-		Ciclev10017109m	scaffold_2	30599335	30602528
Bf0160			-	-	-	-	-	-		Ciclev10016613m	scaffold_2	30599335	30602528
Al0222			-	-	-	-	-	-		Ciclev10015548m	scaffold_2	30607996	30610863
Cp0221		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10016539m	scaffold_2	30648531	30649856	C_unshiu_00125:mRNA_61.1	C_unshiu_00125	360098	361069	Photosystem I reaction center subunit III
Bf0124			-	-	-	-	-	-		Ciclev10014143m	scaffold_2	30660124	30670009
Tf0374			-	-	-	-	-	-		Ciclev10016964m	scaffold_2	30886469	30892663
Tf0409			-	-	-	-	-	-		Ciclev10016959m	scaffold_2	30886469	30892663
Lp0033			-	-	-	-	-	-		Ciclev10016127m	scaffold_2	30923398	30926574
Ov0412		OOthers	-	-	-	-	O	O	SI050,SI222	Ciclev10015053m	scaffold_2	31036088	31038222	C_unshiu_00143:mRNA_11.1	C_unshiu_00143	67475	69537	SEC14 cytosolic factor family protein	AGI-06	42.110	KmG-06	39.373	JtR-06S	15.372
Cp1567			-	-	-	-	-	-		Ciclev10014857m	scaffold_2	31148849	31150616
Wy0035		ULess informative for main cultivars	O	-	-	-	-	-		Ciclev10014857m	scaffold_2	31148849	31150616	C_unshiu_00292:mRNA_13.1	C_unshiu_00292	110620	112650	FAD-binding Berberine family protein	AGI-06	36.863
Af1313			-	-	-	-	-	-		Ciclev10014748m	scaffold_2	31222299	31225439
Tf0253			-	-	-	-	-	-		Ciclev10016685m	scaffold_2	31420457	31425299
Tf0432		AAvailable marker	O	-	-	-	O	O		Ciclev10016685m	scaffold_2	31420457	31425299	C_unshiu_00091:mRNA_39.1	C_unshiu_00091	370141	375026	Nuclear transcription factor Y subunit A-7	AGI-06	38.958
Tf0218			-	-	-	-	-	-		Ciclev10014499m	scaffold_2	31489811	31497594
Tf0395			-	-	-	-	-	-		Ciclev10014499m	scaffold_2	31489811	31497594
Af1010			-	-	-	-	-	-		Ciclev10014106m	scaffold_2	31656510	31666206
Tf0452			-	-	-	-	-	-		Ciclev10014198m	scaffold_2	31740431	31747095
Tf0185			O	-	-	-	-	-		Ciclev10014198m	scaffold_2	31740431	31747095
Wy0056	Wy0056.em	AAvailable marker	-	-	-	-	O	O		Ciclev10014198m	scaffold_2	31740431	31747095	C_unshiu_00027:mRNA_81.1	C_unshiu_00027	521555	527308	Auxin response factor	AGI-06	36.788
Cp0207			-	-	-	-	-	-		Ciclev10015296m	scaffold_2	31851698	31857541
Em0001			-	-	-	-	-	-		Ciclev10016968m	scaffold_2	31927342	31929229	C_unshiu_00027:mRNA_54.1	C_unshiu_00027	345067	346727	50S ribosomal protein L14, chloroplastic	AGI-06	35.643
Al0005			-	-	-	-	-	-		Ciclev10016064m	scaffold_2	32032365	32035492
Af1693			-	-	-	-	-	-		Ciclev10016657m	scaffold_2	32069149	32072079	C_unshiu_00027:mRNA_31.2	C_unshiu_00027	205885	208484	DERLIN-2.2 isoform 1	AGI-06	35.794
Cp0381			-	-	-	-	-	-		Ciclev10015511m	scaffold_2	32155295	32158290
Af1104			-	-	-	-	-	-		Ciclev10015941m	scaffold_2	32155298	32158290
Lp0140		MDisagree by Marco analysis	O	-	-	-	-	-		Ciclev10016399m	scaffold_2	32629908	32634194	C_unshiu_00070:mRNA_52.1	C_unshiu_00070	393864	397918	Universal stress protein A-like protein			KmG-02	12.229	JtR-02	2.765			RP-02	8.172
Al0647		MDisagree by Marco analysis	O	-	-	-	-	-		Ciclev10016069m	scaffold_2	32640743	32643349	C_unshiu_00070:mRNA_53.1	C_unshiu_00070	403765	406305	Nitric oxide synthase-interacting protein homolog	AGI-06		KmG-06	46.877
Gn0045			-	-	-	-	-	-		Ciclev10016917m	scaffold_2	32720609	32721917
Af0008			-	-	-	-	-	-		Ciclev10017323m	scaffold_2	32749064	32749699
Al0201		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10014752m	scaffold_2	32780830	32782885	C_unshiu_00153:mRNA_49.1	C_unshiu_00153	346248	348256	Armadillo/beta-catenin-like repeat family protein, expressed
Al0236			-	-	-	-	-	-		Ciclev10014723m	scaffold_2	32806565	32812384
Af1445			-	-	-	-	-	-		Ciclev10016776m	scaffold_2	32880456	32882923
Lp0221			-	-	-	-	-	-		Ciclev10015663m	scaffold_2	32960362	32966170
Af1127			-	-	-	-	-	-		Ciclev10016337m	scaffold_2	32998560	33003916
Tf0004			-	-	-	-	-	-	SI219,SI330	Ciclev10014045m	scaffold_2	33074821	33084014	C_unshiu_00153:mRNA_7.1	C_unshiu_00153	66406	75053	Putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 2	AGI-06	32.312
Cp1572			-	-	-	-	-	-		Ciclev10014734m	scaffold_2	33198880	33205481
Vs0005		OOthers	O	-	-	-	-	-	SI022,SI075	Ciclev10016009m	scaffold_2	33216839	33219042	C_unshiu_00002:mRNA_211.1	C_unshiu_00002	1511809	1513915	Epoxide hydrolase 2	AGI-06	31.521	KmG-02	59.329	JtR-06S	50.000	NAT-06S	50.000
Cp0042			O	-	-	-	-	-		Ciclev10018175m	scaffold_2	33409222	33411202
Af1477			-	-	-	-	-	-		Ciclev10016057m	scaffold_2	33561487	33563802
Cp0784			-	-	-	-	-	-		Ciclev10016057m	scaffold_2	33561487	33563802
Tf0273			-	-	-	-	-	-		Ciclev10015710m	scaffold_2	33593642	33595988
Al0641			-	-	-	-	-	-		Ciclev10017193m	scaffold_2	33624492	33626591
Af1249			-	-	-	-	-	-		Ciclev10017171m	scaffold_2	33660011	33663665
Al0633		OOthers	O	-	-	-	-	O	SI123	Ciclev10015092m	scaffold_2	33837403	33842156	C_unshiu_00002:mRNA_126.1	C_unshiu_00002	901824	911260	Vascular plant one zinc finger protein isoform 1			KmG-06	55.857	JtR-06S	59.645	NAT-06S	51.106	RP-06.2	27.837
Mf0083		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10015092m	scaffold_2	33837403	33842156	No					AGI-06	39.963
Cp0537		AAvailable marker	O	-	-	-	O	O		Ciclev10016779m	scaffold_2	34189216	34193815	C_unshiu_00002:mRNA_71.2	C_unshiu_00002	543564	547918	Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 10	AGI-06	25.930
Tf0095			O	-	-	-	-	-		Ciclev10016229m	scaffold_2	34412152	34415059
Af1320			-	-	-	-	-	-		Ciclev10018023m	scaffold_2	34602479	34604518
Af1631			-	-	-	-	-	-		Ciclev10015794m	scaffold_2	34609196	34614203
Tf0344		AAvailable marker	O	-	-	-	O	O		Ciclev10016433m	scaffold_2	34624236	34631123	C_unshiu_00002:mRNA_17.1	C_unshiu_00002	124392	131264	Floral homeotic protein AGAMOUS	AGI-06	24.216
Af1380			-	-	-	-	-	-		Ciclev10017148m	scaffold_2	34764294	34766390
Al0414			-	-	-	-	-	-		Ciclev10014243m	scaffold_2	34775232	34780330
Af1440			-	-	-	-	-	-		Ciclev10014238m	scaffold_2	34817075	34823291
Lp0121			-	-	-	-	-	-		Ciclev10017090m	scaffold_2	34829300	34831997
Lp0020			-	-	-	-	-	-		Ciclev10017167m	scaffold_2	34841952	34844319
Af1351			-	-	-	-	-	-		Ciclev10016286m	scaffold_2	34918217	34919258
Cp2079			-	-	-	-	-	-		Ciclev10015139m	scaffold_2	34993442	34996954
Af1580			-	-	-	-	-	-		Ciclev10016368m	scaffold_2	35013848	35015439	C_unshiu_00048:mRNA_76.1	C_unshiu_00048	512885	514767	NAD(P)-binding Rossmann-fold superfamily protein isoform 2	AGI-06	20.932
Ov0325			-	-	-	-	-	-		Ciclev10016692m	scaffold_2	35180594	35182774	C_unshiu_00048:mRNA_54.1	C_unshiu_00048	359734	361893	SGS domain-containing protein							NAT-082	48.374
Mf0048			-	-	-	-	-	-		Ciclev10014833m	scaffold_2	35204970	35210387
Al0417		MDisagree by Marco analysis	O	-	-	-	-	-	SI244,SI255	Ciclev10015483m	scaffold_2	35212691	35214865	C_unshiu_00048:mRNA_50.1	C_unshiu_00048	328418	330513	Kelch repeat-containing F-box family protein	AGI-06	20.297	KmG-06	62.256			NAT-06S	56.647
Bf0110			-	-	-	-	-	-	SI297	Ciclev10014639m	scaffold_2	35235517	35237892	C_unshiu_00048:mRNA_48.1	C_unshiu_00048	306412	308620	9-cis-epoxycarotenoid dioxygenase 1
Al0504			-	-	-	-	-	-		Ciclev10015664m	scaffold_2	35273688	35277908
Af1378			-	-	-	-	-	-		Ciclev10016040m	scaffold_2	35273688	35277907
Lp0043		OOthers	-	-	-	-	-	-		Ciclev10015870m	scaffold_2	35334245	35336841
Ov0128		OOthers	-	-	-	-	-	-		Ciclev10015870m	scaffold_2	35334245	35336841
Cp0101			-	-	-	-	-	-		Ciclev10015680m	scaffold_2	35349063	35350706
Bf0028		DDominant marker	O	-	-	O	-	-	SI001	Ciclev10014319m	scaffold_2	35354776	35363026	C_unshiu_00048:mRNA_32.1	C_unshiu_00048	179733	188796	Soluble starch synthase III-1	AGI-06	17.966
Cp0384		AAvailable marker	O	-	-	-	O	O		Ciclev10015162m	scaffold_2	35422598	35425980	C_unshiu_00048:mRNA_23.2	C_unshiu_00048	111764	114820	APS reductase	AGI-06	19.002
Cp0070			O	-	-	-	-	-		Ciclev10014440m	scaffold_2	35429103	35435228
Af1340			-	-	-	-	-	-		Ciclev10015433m	scaffold_2	35470078	35472862
If0003		Bno homozygous cultivar with minor allele	-	-	-	-	-	-	SI130	Ciclev10015433m	scaffold_2	35470078	35472862	C_unshiu_00048:mRNA_13.1	C_unshiu_00048	64652	67377	Aminomethyltransferase	AGI-06	18.136			JtR-06S	67.371
Tf0060			-	-	-	-	-	-		Ciclev10014642m	scaffold_2	35513796	35516719
If0002		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10016861m	scaffold_2	35546692	35549207	C_unshiu_01497:mRNA_3.1	C_unshiu_01497	10215	14601	YggS family pyridoxal phosphate enzyme	AGI-06	19.002	KmG-06	62.901
Tf0119		AAvailable marker	-	-	-	-	O	O		Ciclev10014416m	scaffold_2	35564238	35570619	C_unshiu_01497:mRNA_5.1	C_unshiu_01497	20297	33375	Hypothetical protein	AGI-06	19.002
Vt0001		AAvailable marker	-	-	-	-	O	O		Ciclev10014290m	scaffold_2	35624935	35628855	C_unshiu_00337:mRNA_2.1	C_unshiu_00337	2684	6536	Subtilase family protein	AGI-06	16.327	KmG-06	68.041
Tf0209			-	-	-	-	-	-		Ciclev10015591m	scaffold_2	35642412	35646764
Tf0387			-	-	-	-	-	-		Ciclev10015591m	scaffold_2	35642412	35646764
Af1395			-	-	-	-	-	-		Ciclev10016067m	scaffold_2	35656845	35659383
Cp0071			-	-	-	-	-	-		Ciclev10014760m	scaffold_2	35681538	35687125
Fb1685			-	-	-	-	-	-		Ciclev10015934m	scaffold_2	35693249	35696515
Gn0005		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10015934m	scaffold_2	35693249	35696515	C_unshiu_00337:mRNA_13.1	C_unshiu_00337	68883	71725	Fibrillin	AGI-06	16.857	KmG-06	63.840			NAT-06S	59.976
Gn0005.2			-	-	-	-	-	-		Ciclev10015934m	scaffold_2	35693249	35696515
Af1642			-	-	-	-	-	-		Ciclev10015934m	scaffold_2	35693249	35696515
Cp1577			-	-	-	-	-	-		Ciclev10015546m	scaffold_2	35732486	35736448
Fb0104		OOthers	O	-	-	-	-	-		Ciclev10016358m	scaffold_2	35758546	35760859	C_unshiu_00337:mRNA_24.1	C_unshiu_00337	135198	136991	Tropinone reductase like	AGI-06	16.857							RP-06.2	16.271
Af1288			-	-	-	-	-	-		Ciclev10016357m	scaffold_2	35803512	35805985
Af1009			-	-	-	-	-	-		Ciclev10015365m	scaffold_2	35818327	35822366
Af1155			-	-	-	-	-	-		Ciclev10016372m	scaffold_2	35836830	35839763
Af1024			-	-	-	-	-	-		Ciclev10016735m	scaffold_2	35841859	35844177
Gn0073		AAvailable marker	O	O	-	-	O	O		Ciclev10014770m	scaffold_2	35895662	35898841	C_unshiu_00077:mRNA_4.1	C_unshiu_00077	30410	32987	Tonoplast dicarboxylate transporter	AGI-06	12.402
Al0508			-	-	-	-	-	-		Ciclev10017102m	scaffold_2	35920186	35922196
Af1222			-	-	-	-	-	-		Ciclev10018015m	scaffold_2	35934589	35935920
Bf0193			O	-	-	-	-	-	SI100,SI109	Ciclev10014811m	scaffold_2	35970577	35973973	C_unshiu_00077:mRNA_15.2	C_unshiu_00077	102078	105358	Scarecrow-like transcription factor PAT1									RP-06.2	14.065
Tf0330			-	-	-	-	-	-	SI064,SI139	Ciclev10014811m	scaffold_2	35970577	35973973	C_unshiu_00077:mRNA_15.2	C_unshiu_00077	102078	105358	Scarecrow-like transcription factor PAT1	AGI-06	13.470
Af1176			-	-	-	-	-	-		Ciclev10017100m	scaffold_2	35980341	35983262
Af1489			-	-	-	-	-	-		Ciclev10016302m	scaffold_2	36078501	36081245
Al0607			-	-	-	-	-	-		Ciclev10016035m	scaffold_2	36163290	36165355
Tf0225			-	-	-	-	-	-		Ciclev10015893m	scaffold_2	36211961	36216858
Tf0402			-	-	-	-	-	-		Ciclev10015893m	scaffold_2	36211961	36216858	C_unshiu_00077:mRNA_57.1	C_unshiu_00077	335424	340163	MYB-CC type transfactor	AGI-06	9.560
Tf0086			-	-	-	-	-	-		Ciclev10018915m	scaffold_3	62157	67039
Tf0277		OOthers	O	-	-	-	-	-		Ciclev10019282m	scaffold_3	181596	185335
Af0014			-	-	-	-	-	-		Ciclev10023139m	scaffold_3	253879	254627
If0218			-	-	-	-	-	-		Ciclev10022441m	scaffold_3	449407	451690
Al0320			-	-	-	-	-	-		Ciclev10020878m	scaffold_3	541575	543121	C_unshiu_01206:mRNA_1.1	C_unshiu_01206	4346	5819	Phosphoenolpyruvate carboxylase family protein					JtR-05	23.890
Al0320.2	Al0320.em	AAvailable marker	-	-	-	-	-	O		Ciclev10020878m	scaffold_3	541575	543121	C_unshiu_01206:mRNA_1.1	C_unshiu_01206	4346	5819	Phosphoenolpyruvate carboxylase family protein					JtR-05	23.890
Cp1487			-	-	-	-	-	-		Ciclev10020878m	scaffold_3	541575	543121
Al0321.2		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10020878m	scaffold_3	541575	543121
Af1562			-	-	-	-	-	-		Ciclev10022384m	scaffold_3	548048	549062
Af1114			-	-	-	-	-	-		Ciclev10022658m	scaffold_3	602713	605468
Af1073			O	-	-	-	-	-		Ciclev10021041m	scaffold_3	632882	635612
Gmom11			-	-	-	-	-	-		Ciclev10019184m	scaffold_3	680835	684433
Wy0100			-	-	-	-	-	-		Ciclev10018814m	scaffold_3	688264	692703
Cp0403			-	-	-	-	-	-		Ciclev10022161m	scaffold_3	749176	751194
Cp2048			-	-	-	-	-	-		Ciclev10024054m	scaffold_3	807021	808331
Fb0423			O	-	-	-	-	-		Ciclev10020919m	scaffold_3	867235	871452
Fb0130			-	-	-	-	-	-		Ciclev10021969m	scaffold_3	894965	897547
Tf0289			-	-	-	-	-	-	SI207	Ciclev10020486m	scaffold_3	915818	919213	C_unshiu_01070:mRNA_6.1	C_unshiu_01070	43545	46732	Putative E3 ubiquitin-protein ligase UBR7
Tf0439			-	-	-	-	-	-		Ciclev10020486m	scaffold_3	915818	919213
Af1090			-	-	-	-	-	-		Ciclev10019200m	scaffold_3	951691	958430
Ov0102			-	-	-	-	-	-		Ciclev10019301m	scaffold_3	972289	976751
Tf0010			-	-	-	-	-	-		Ciclev10021038m	scaffold_3	1054257	1056078	C_unshiu_00609:mRNA_18.1	C_unshiu_00609	77883	79313	Putative WRKY transcription factor 41	AGI-05
Cp0401			-	-	-	-	-	-		Ciclev10022489m	scaffold_3	1056116	1057706
Af1237			-	-	-	-	-	-		Ciclev10021146m	scaffold_3	1058012	1060668
Tf0127			-	-	-	-	-	-		Ciclev10023918m	scaffold_3	1084467	1086978
Al0217		Bno homozygous cultivar with minor allele	-	-	-	-	-	-	SI350	Ciclev10022061m	scaffold_3	1203357	1206483	No							KmG-05S		JtR-05	25.182
Al0218.2			-	-	-	-	-	-		Ciclev10022061m	scaffold_3	1203357	1206483
Af1209			-	-	-	-	-	-		Ciclev10022439m	scaffold_3	1281119	1281817
Tf0091			-	-	-	-	-	-		Ciclev10019140m	scaffold_3	1301192	1305787
Ov0312			-	-	-	-	-	-		Ciclev10018858m	scaffold_3	1344192	1349935	C_unshiu_00541:mRNA_19.1	C_unshiu_00541	170170	175878	Spastin									SA-09	8.022
Af1267			-	-	-	-	-	-		Ciclev10023047m	scaffold_3	1465301	1468225
Cp2046			-	-	-	-	-	-		Ciclev10023047m	scaffold_3	1465301	1468225
Lp0139			-	-	-	-	-	-		Ciclev10021991m	scaffold_3	1470163	1473304
Bf0156			-	-	-	-	-	-		Ciclev10021991m	scaffold_3	1470163	1473304
Cp0243			-	-	-	-	-	-		Ciclev10019694m	scaffold_3	1582675	1586208
Tf0141			-	-	-	-	-	-		Ciclev10019130m	scaffold_3	1593979	1598159
Tf0342			-	-	-	-	-	-	SI151	Ciclev10019088m	scaffold_3	1649410	1655963	C_unshiu_00343:mRNA_23.1	C_unshiu_00343	203038	209504	DNA repair helicase	AGI-05	5.510
Lp0021		AtAvailable marker	O	-	-	-	-	O		Ciclev10021502m	scaffold_3	1771668	1774647	C_unshiu_00534:mRNA_8.2	C_unshiu_00534	53508	55845	Aquaporin
Gmom03			-	-	-	-	-	-		Ciclev10019436m	scaffold_3	1864604	1871328	C_unshiu_01325:mRNA_3.1	C_unshiu_01325	7876	14474	Bromo-adjacent-like (BAH) domain protein	AGI-05	7.888
Cp1586			-	-	-	-	-	-		Ciclev10019696m	scaffold_3	1881156	1887598
Fb0346			-	-	-	-	-	-		Ciclev10021000m	scaffold_3	2002427	2008126
Tf0447			-	-	-	-	-	-		Ciclev10021000m	scaffold_3	2002427	2008126
Cp1405			-	-	-	-	-	-		Ciclev10021000m	scaffold_3	2002427	2008126
Tf0152		AAvailable marker	O	-	-	-	O	O		Ciclev10021000m	scaffold_3	2002427	2008126	C_unshiu_01105:mRNA_2.1	C_unshiu_01105	3681	8106	AT-hook motif nuclear localized protein 1	AGI-05	8.506
Vs0004			-	-	-	-	-	-		Ciclev10021761m	scaffold_3	2078691	2083111	C_unshiu_00490:mRNA_23.1	C_unshiu_00490	182148	190847	Nucleosome assembly protein			KmG-06	51.244
Tf0317			-	-	-	-	-	-	SI145	Ciclev10021941m	scaffold_3	2106810	2109266	C_unshiu_00490:mRNA_19.1	C_unshiu_00490	159122	161521	Transcription factor bHLH47
Af1029			-	-	-	-	-	-		Ciclev10022553m	scaffold_3	2110308	2113166
Af1304			-	-	-	-	-	-		Ciclev10019494m	scaffold_3	2210485	2215202
Cp0500			-	-	-	-	-	-		Ciclev10022359m	scaffold_3	2292399	2293655
Af1198			-	-	-	-	-	-		Ciclev10021819m	scaffold_3	2319675	2322962
Tf0328			-	-	-	-	-	-	SI039,SI180	Ciclev10021606m	scaffold_3	2530708	2533942	C_unshiu_00509:mRNA_27.1	C_unshiu_00509	178211	181426	Transcription factor bHLH79
Mf0020			-	-	-	-	-	-		Ciclev10023252m	scaffold_3	2645845	2647776	No													SA-05	30.880
Mf0068			-	-	-	-	-	-		Ciclev10023101m	scaffold_3	2718186	2719011
Af1159			-	-	-	-	-	-		Ciclev10022925m	scaffold_3	2774465	2775592
Af1675			-	-	-	-	-	-		Ciclev10024649m	scaffold_3	2793365	2795811
Af1466			-	-	-	-	-	-		Ciclev10022406m	scaffold_3	2803785	2805325
Ov0012			-	-	-	-	-	-		Ciclev10019638m	scaffold_3	2933121	2937460	C_unshiu_00092:mRNA_50.1	C_unshiu_00092	356984	361021	Aldehyde dehydrogenase			KmG-05S	100.000
Al0637		AAvailable marker	O	-	-	-	-	O	SI353	Ciclev10019147m	scaffold_3	2939620	2941934	C_unshiu_00092:mRNA_51.1	C_unshiu_00092	363486	365791	Spotted leaf protein, putative
Al0317			-	-	-	-	-	-		Ciclev10021392m	scaffold_3	3006218	3008357	C_unshiu_00092:mRNA_60.1	C_unshiu_00092	425854	427887	CASP-like protein 4A2			KmG-05S	16.871	JtR-05	9.525
Al0318	Al0318.2	AAvailable marker	-	-	-	-	-	O		Ciclev10021392m	scaffold_3	3006218	3008357
Af1666			-	-	-	-	-	-		Ciclev10019037m	scaffold_3	3024295	3028262
Cp0965			-	-	-	-	-	-		Ciclev10020405m	scaffold_3	3201206	3204377
Af1253			-	-	-	-	-	-		Ciclev10020405m	scaffold_3	3201206	3204377	C_unshiu_00163:mRNA_29.1	C_unshiu_00163	211551	214568	Phosphate/phosphoenolpyruvate translocator	AGI-05	24.709
Cp1912			-	-	-	-	-	-		Ciclev10020299m	scaffold_3	3241862	3247042
Af1158			-	-	-	-	-	-		Ciclev10020023m	scaffold_3	3241862	3247042
Cp2223		OOthers	-	-	-	-	-	-		Ciclev10022371m	scaffold_3	3483334	3485637	C_unshiu_00933:mRNA_9.1	C_unshiu_00933	86958	89273	Protein LATERAL ORGAN BOUNDARIES	AGI-05	25.049
Bf0174			O	-	-	-	-	-	SI282	Ciclev10019861m	scaffold_3	3551542	3555978	C_unshiu_00120:mRNA_17.1	C_unshiu_00120	130029	134158	Atp-dependent RNA helicase	AGI-05	25.049
Af1367			-	-	-	-	-	-		Ciclev10022240m	scaffold_3	3643442	3647377
Af1357			-	-	-	-	-	-		Ciclev10019924m	scaffold_3	3650294	3652372
Cp1598		AAvailable marker	-	-	-	-	O	O		Ciclev10021001m	scaffold_3	3802387	3805494	C_unshiu_00849:mRNA_13.2	C_unshiu_00849	72935	75824	31 kDa ribonucleoprotein	AGI-05	12.715
Af1643			-	-	-	-	-	-		Ciclev10021001m	scaffold_3	3802387	3805494
Cp2112			-	-	-	-	-	-		Ciclev10019054m	scaffold_3	3915455	3918620
Lp0215			-	-	-	-	-	-		Ciclev10019069m	scaffold_3	3919656	3924283
Ov0316			-	-	-	-	-	-		Ciclev10020995m	scaffold_3	3963024	3966516	C_unshiu_00318:mRNA_19.1	C_unshiu_00318	155111	158235	Zinc finger CCCH domain-containing protein 43					JtR-05	31.749
Ov0317	Ov0316.2		-	-	-	-	-	-		Ciclev10020995m	scaffold_3	3963024	3966516
Af1633			-	-	-	-	-	-		Ciclev10020304m	scaffold_3	3963024	3966516	C_unshiu_00318:mRNA_19.1	C_unshiu_00318	155111	158235	Zinc finger CCCH domain-containing protein 43	AGI-07	67.201
Tf0051			-	-	-	-	-	-	SI027,SI214	Ciclev10021952m	scaffold_3	3964036	3966516	C_unshiu_00318:mRNA_19.1	C_unshiu_00318	155111	158235	Zinc finger CCCH domain-containing protein 43	AGI-05	25.590
Cp2229		AAvailable marker	-	-	-	-	O	O		Ciclev10022058m	scaffold_3	4117485	4120274	C_unshiu_00318:mRNA_6.1	C_unshiu_00318	44376	47085	Nucleoside diphosphate kinase	AGI-05	27.135
Al0312			-	-	-	-	-	-		Ciclev10021037m	scaffold_3	4144939	4148359
Af1679			-	-	-	-	-	-		Ciclev10021896m	scaffold_3	4260126	4262819	C_unshiu_00186:mRNA_34.1	C_unshiu_00186	288266	290432	Adenylate kinase	AGI-05	29.035
Al0207		OOthers	-	-	-	-	-	-		Ciclev10020027m	scaffold_3	4366802	4370111	C_unshiu_00186:mRNA_18.1	C_unshiu_00186	178635	181547	SNF1-related protein kinase regulatory subunit gamma-1	AGI-09	84.537			JtR-09S	9.929
Af1594			-	-	-	-	-	-		Ciclev10018838m	scaffold_3	4401159	4407506
Af1453			-	-	-	-	-	-		Ciclev10023068m	scaffold_3	4663211	4664667	C_unshiu_01589:mRNA_7.1	C_unshiu_01589	29063	37936	Hypothetical protein	AGI-05	27.956
Ov0409			-	-	-	-	-	-		Ciclev10022219m	scaffold_3	4736047	4740432
Tf0294		AAvailable marker	O	-	-	-	O	O		Ciclev10021365m	scaffold_3	4794701	4799518	C_unshiu_00135:mRNA_58.2	C_unshiu_00135	398519	403121	Ureidoglycine aminohydrolase isoform 1	AGI-05	27.135
Cp1533			-	-	-	-	-	-		Ciclev10021868m	scaffold_3	4831751	4834270	C_unshiu_00768:mRNA_14.1	C_unshiu_00768	110682	113065	Lil3 protein	AGI-05	29.039
Tf0331			-	-	-	-	-	-		Ciclev10021868m	scaffold_3	4831751	4834270
Cp1529			-	-	-	-	-	-		Ciclev10021432m	scaffold_3	4840947	4846859
Tf0158			-	-	-	-	-	-		Ciclev10019607m	scaffold_3	4883124	4889593
Wy0006			O	-	-	-	-	-		Ciclev10021901m	scaffold_3	4903592	4905871	C_unshiu_00628:mRNA_6.1	C_unshiu_00628	38419	40239	Bax inhibitor 1			KmG-05S	19.072	JtR-05	19.698	NAT-05	21.803
Bf0165			-	-	-	-	-	-	SI280	Ciclev10021901m	scaffold_3	4903592	4905871	C_unshiu_00628:mRNA_6.1	C_unshiu_00628	38419	40239	Bax inhibitor 1	AGI-05	29.035					NAT-05	23.083	RP-05	19.690
Af1396			-	-	-	-	-	-		Ciclev10022545m	scaffold_3	4920662	4923421	C_unshiu_00520:mRNA_16.2	C_unshiu_00520	166824	167867	Ribosomal protein L19 family protein	AGI-05	28.041
Af1488			-	-	-	-	-	-		Ciclev10020747m	scaffold_3	4959826	4964659
Edw004			-	-	-	-	-	-		Ciclev10021285m	scaffold_3	5253281	5254755
Bf0158			-	O	-	O	-	-	SI376	Ciclev10021285m	scaffold_3	5253281	5254755	C_unshiu_00795:mRNA_3.1	C_unshiu_00795	22534	23534	Ethylene responsive element binding factor, putative	AGI-05	29.035					NAT-05	21.258	RP-05	20.825
Wy0018		AAvailable marker	-	-	-	-	O	O		Ciclev10021374m	scaffold_3	5318874	5321054	C_unshiu_00442:mRNA_14.1	C_unshiu_00442	123398	125451	Homeobox-leucine zipper protein HAT3	AGI-05	29.033	KmG-05S	20.128	JtR-05	19.008
Tf0262			-	-	-	-	-	-		Ciclev10021374m	scaffold_3	5318874	5321054
Tf0301			-	-	-	-	-	-	SI182	Ciclev10021374m	scaffold_3	5318874	5321054	C_unshiu_00442:mRNA_14.1	C_unshiu_00442	123398	125451	Homeobox-leucine zipper protein HAT3
Tf0436			-	-	-	-	-	-		Ciclev10021374m	scaffold_3	5318874	5321054
Ov0301		Bno homozygous cultivar with minor allele	-	-	-	-	-	-	SI078	Ciclev10021068m	scaffold_3	5360113	5362918	C_unshiu_00442:mRNA_18.1	C_unshiu_00442	163615	166153	Transcription factor			KmG-05S	23.526	JtR-05	19.932			RP-05	21.590
Ov0302	Ov0301.2		-	-	-	-	-	-		Ciclev10021068m	scaffold_3	5360113	5362918	C_unshiu_00442:mRNA_18.1	C_unshiu_00442	163615	166153	Transcription factor
Tf0017			-	-	-	-	-	-	SI285	Ciclev10021068m	scaffold_3	5360113	5362918	C_unshiu_00442:mRNA_18.1	C_unshiu_00442	163615	166153	Transcription factor	AGI-05	28.617
Ov0006		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10021068m	scaffold_3	5360113	5362918	C_unshiu_00442:mRNA_18.1	C_unshiu_00442	163615	166153	Transcription factor			KmG-05S	25.587	JtR-08	27.669
Ov0007.2			-	-	-	-	-	-		Ciclev10021068m	scaffold_3	5360113	5362918
Tf0186			-	-	-	-	-	-		Ciclev10024602m	scaffold_3	5382490	5385009
Gn0050			-	-	-	-	-	-		Ciclev10024602m	scaffold_3	5382490	5385009	C_unshiu_00014:mRNA_87.1	C_unshiu_00014	637698	638678	CRT binding factor 3	AGI-05	29.035	KmG-05S	21.884	JtR-05	19.008
Wy0046	Wy0046.k		-	-	-	-	-	-		Ciclev10024602m	scaffold_3	5382490	5385009
Al0311			-	-	-	-	-	-		Ciclev10020637m	scaffold_3	5456336	5459361
Af1452			-	-	-	-	-	-		Ciclev10018443m	scaffold_3	5518457	5529974	C_unshiu_00900:mRNA_3.1	C_unshiu_00900	20186	30140	Pheromone-processing carboxypeptidase kex1	AGI-05	29.863
Wy0054	Wy0054.em		-	-	-	-	-	-		Ciclev10018486m	scaffold_3	5585142	5593506
Af1188			-	-	-	-	-	-		Ciclev10021960m	scaffold_3	5606601	5609366
Su0004			-	-	-	-	-	-		Ciclev10022825m	scaffold_3	5829459	5830556
Cp0073			O	-	-	-	-	-		Ciclev10020501m	scaffold_3	5972288	5978062	C_unshiu_00997:mRNA_9.1	C_unshiu_00997	69257	75059	Transaldolase	AGI-05	34.924
Al0516			-	-	-	-	-	-		Ciclev10019134m	scaffold_3	5981066	5985524
Af1164			-	-	-	-	-	-		Ciclev10019787m	scaffold_3	5981066	5985524
Ov0103			-	-	-	-	-	-		Ciclev10019410m	scaffold_3	5991281	5995312
Fb1678			O	-	-	-	-	-		Ciclev10022198m	scaffold_3	6000266	6002833	C_unshiu_00997:mRNA_6.2	C_unshiu_00997	44420	46811	Putative axial regulator YABBY 2	AGI-05	45.297
Af1099			-	-	-	-	-	-		Ciclev10019462m	scaffold_3	6072460	6076187
Bf0138		MDisagree by Marco analysis	O	-	-	-	-	-		Ciclev10019462m	scaffold_3	6072460	6076187	C_unshiu_00428:mRNA_16.2	C_unshiu_00428	119232	121021	Oxygen-evolving enhancer protein 2, chloroplastic							NAT-05	14.555	RP-05	24.995
Lp0143		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10019139m	scaffold_3	6076949	6080875	C_unshiu_00159:mRNA_40.1	C_unshiu_00159	339926	343475	Translation elongation factor G	AGI-05	45.297			JtR-05	18.056
Af1536			-	-	-	-	-	-		Ciclev10021945m	scaffold_3	6113049	6116055
Al0335			-	-	-	-	-	-		Ciclev10021844m	scaffold_3	6131214	6135849
Lp0207			O	-	-	-	-	-		Ciclev10021695m	scaffold_3	6140332	6142252	C_unshiu_01103:mRNA_8.1	C_unshiu_01103	67531	69104	Protein ODORANT1	AGI-05	45.374							RP-05	25.010
Cp0076			O	-	-	-	-	-		Ciclev10021577m	scaffold_3	6329133	6332201	C_unshiu_01248:mRNA_3.1	C_unshiu_01248	39031	42057	ATP-dependent Clp protease, proteolytic subunit ClpP	AGI-05	35.411
Af1221			-	-	-	-	-	-		Ciclev10022216m	scaffold_3	6329133	6332201
Cp1490			-	-	-	-	-	-		Ciclev10021970m	scaffold_3	6369398	6372018
Al0326		AAvailable marker	-	-	-	O	O	-	SI065,SI344	Ciclev10022558m	scaffold_3	6409311	6411254	C_unshiu_00443:mRNA_7.1	C_unshiu_00443	62532	64193	Zinc finger A20 and AN1 domain-containing stress-associated protein 8	AGI-05	42.609	KmG-05S	32.841	JtR-05	16.025			RP-05	27.235
Al0327	Al0326.2		-	-	-	-	-	-		Ciclev10022558m	scaffold_3	6409311	6411254
Bf0233		MDisagree by Marco analysis	O	-	-	-	-	-	SI359	Ciclev10019826m	scaffold_3	6502231	6504139	C_unshiu_00521:mRNA_1.1	C_unshiu_00521	2449	4274	Cytochrome P450 76C2	AGI-05	42.581							RP-05	27.235
If0222			-	-	-	-	-	-		Ciclev10021958m	scaffold_3	6541868	6545524
Cp1489			-	-	-	-	-	-		Ciclev10021127m	scaffold_3	6577360	6582553
Af1577			-	-	-	-	-	-		Ciclev10021651m	scaffold_3	6602994	6605239
Cp1488	Cp1488.1		-	-	-	-	-	-		Ciclev10021651m	scaffold_3	6602994	6605239
Cp1488.2			-	-	-	-	-	-		Ciclev10021651m	scaffold_3	6602994	6605239
Cp1585		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10021651m	scaffold_3	6602994	6605239	C_unshiu_00412:mRNA_10.1	C_unshiu_00412	80300	82171	Stay green protein
Tf0083			-	-	-	-	-	-	SI129	Ciclev10021651m	scaffold_3	6602994	6605239	C_unshiu_00412:mRNA_10.1	C_unshiu_00412	80300	82171	Stay green protein	AGI-05	37.103
Tf0420		AAvailable marker	O	O	O	-	O	O		Ciclev10022018m	scaffold_3	6602994	6605239	C_unshiu_00412:mRNA_10.1	C_unshiu_00412	80300	82171	Stay green protein	AGI-05	37.103
Tf0282			-	-	-	-	-	-		Ciclev10021334m	scaffold_3	6654997	6660313
Al0251			-	-	-	-	-	-		Ciclev10021340m	scaffold_3	6695171	6697430
Mf0091			-	-	-	-	-	-		Ciclev10019105m	scaffold_3	6748406	6756264
Tf0108			-	-	-	-	-	-		Ciclev10021923m	scaffold_3	6828481	6829499
Af1036			O	-	-	-	-	-		Ciclev10021080m	scaffold_3	7016831	7019863	C_unshiu_00425:mRNA_11.1	C_unshiu_00425	65596	68473	Replication factor C subunit 2	AGI-05	43.118
Tf0079		MDisagree by Marco analysis	O	-	-	O	-	-	SI270,SI294	Ciclev10021287m	scaffold_3	7047024	7049430	C_unshiu_00425:mRNA_7.1	C_unshiu_00425	35608	38027	Heat stress transcription factor B-4	AGI-05	45.092
Af1276			-	-	-	-	-	-		Ciclev10022100m	scaffold_3	7080222	7081373
Cp1817			-	-	-	-	-	-		Ciclev10018833m	scaffold_3	7163697	7167661
Edp003			-	-	-	-	-	-		Ciclev10020967m	scaffold_3	7197712	7199779
Tf0115			-	-	-	-	-	-		Ciclev10020967m	scaffold_3	7197712	7199779
Gmom07			-	-	-	-	-	-		Ciclev10021492m	scaffold_3	7248627	7253007
Tf0099.2			-	-	-	-	-	-		Ciclev10019949m	scaffold_3	7286661	7290182
Cp1268			-	-	-	-	-	-		Ciclev10021861m	scaffold_3	7327436	7329167	C_unshiu_00199:mRNA_13.1	C_unshiu_00199	87134	88461	Light-harvesting complex I protein subunit a4	AGI-05	44.864
Al0306		Bno homozygous cultivar with minor allele	-	-	-	-	-	-	SI029	Ciclev10021897m	scaffold_3	7337405	7339222	C_unshiu_00199:mRNA_11.1	C_unshiu_00199	77240	79028	Expansin					JtR-05	23.944
Al0307	Al0307.2		-	-	-	-	-	-		Ciclev10021897m	scaffold_3	7337405	7339222
Mf0017		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10021897m	scaffold_3	7337405	7339222	C_unshiu_00199:mRNA_11.1	C_unshiu_00199	77240	79028	Expansin	AGI-05	44.674
Cp2208		AAvailable marker	-	-	-	-	-	O		Ciclev10021564m	scaffold_3	7420176	7425027	C_unshiu_00995:mRNA_4.1	C_unshiu_00995	39031	43144	D-ribulose-5-phosphate-3-epimerase isoform 1
Af1160			-	-	-	-	-	-		Ciclev10022213m	scaffold_3	7425353	7428313
Fb0369			-	-	-	-	-	-		Ciclev10019885m	scaffold_3	7792188	7795727	C_unshiu_01545:mRNA_3.1	C_unshiu_01545	37559	39424	AT-rich interactive domain-containing protein 2	AGI-05	44.172	KmG-05S	30.809	JtR-05	16.246
Ov0309			-	-	-	-	-	-		Ciclev10022230m	scaffold_3	8078609	8083078
Bf0177			-	-	-	-	-	-	SI060	Ciclev10022075m	scaffold_3	8186689	8189902	C_unshiu_00154:mRNA_43.2	C_unshiu_00154	341574	344576	Phosphoserine phosphatase	AGI-05	44.047
Cp1815		OOthers	-	-	-	-	-	-		Ciclev10022373m	scaffold_3	8256398	8257886	C_unshiu_00154:mRNA_28.1	C_unshiu_00154	274299	275412	Wiskott-Aldrich syndrome protein family member 2	AGI-05	51.501
Af1022			-	-	-	-	-	-		Ciclev10022479m	scaffold_3	8486491	8488997
Edp002			-	-	-	-	-	-		Ciclev10022479m	scaffold_3	8486491	8488997
Tf0145			-	-	-	-	-	-	SI092	Ciclev10022479m	scaffold_3	8486491	8488997	C_unshiu_00154:mRNA_7.1	C_unshiu_00154	49131	60112	Floral homeotic protein APETALA 1
Tf0376		AAvailable marker	O	-	-	-	O	O	SI072	Ciclev10022680m	scaffold_3	8528292	8529236	C_unshiu_00154:mRNA_1.1	C_unshiu_00154	9832	10761	CRT binding factor 3	AGI-05	41.853
Bf0103			-	-	-	-	-	-		Ciclev10021205m	scaffold_3	8556241	8560871
Cp0835			-	-	-	-	-	-		Ciclev10019790m	scaffold_3	8640420	8644420
Tf0001.2		AAvailable marker	O	O	O	-	O	O		Ciclev10020248m	scaffold_3	8647529	8652282	C_unshiu_00580:mRNA_10.1	C_unshiu_00580	75118	81473	Transcription factor BIM1	AGI-05	41.893
Tf0078.2			-	-	-	-	-	-		Ciclev10020248m	scaffold_3	8647529	8652282
Cp0125			-	-	-	-	-	-		Ciclev10018700m	scaffold_3	8718653	8721659
Af1101			-	-	-	-	-	-		Ciclev10022644m	scaffold_3	8843644	8845811
Cp1958			-	-	-	-	-	-		Ciclev10021818m	scaffold_3	8910454	8913829
Tf0350		OOthers	O	-	-	-	-	-	SI132	Ciclev10019034m	scaffold_3	8914744	8921411	C_unshiu_00695:mRNA_7.1	C_unshiu_00695	71483	77987	Acetyl-coenzyme A synthetase	AGI-05	43.295
Af1506			-	-	-	-	-	-		Ciclev10019034m	scaffold_3	8914744	8921411
Af1595			-	-	-	-	-	-		Ciclev10022641m	scaffold_3	9040181	9045543
Bf0402			-	-	-	-	-	-		Ciclev10020232m	scaffold_3	9137249	9144663	C_unshiu_00058:mRNA_19.1	C_unshiu_00058	104866	110977	TRNA-specific adenosine deaminase-like protein 3	AGI-05	43.970
Wy0010			-	-	-	-	-	-		Ciclev10019848m	scaffold_3	9466071	9468445
Lp0235			O	-	-	-	-	-		Ciclev10019848m	scaffold_3	9466071	9468445	C_unshiu_00227:mRNA_19.1	C_unshiu_00227	186549	194369	Nepenthesin II	AGI-05	43.412							RP-05	44.731
Af1471			-	-	-	-	-	-		Ciclev10022208m	scaffold_3	9747775	9750640
Tf0268		AAvailable marker	O	-	-	-	O	O		Ciclev10021157m	scaffold_3	10140904	10142752	C_unshiu_00149:mRNA_29.1	C_unshiu_00149	326478	328059	Transcription factor MYB21	AGI-05	43.800
Tf0278			-	-	-	-	-	-		Ciclev10021157m	scaffold_3	10140904	10142752
Edb005			-	-	-	-	-	-		Ciclev10021157m	scaffold_3	10140904	10142752
Cp0540			-	-	-	-	-	-		Ciclev10020181m	scaffold_3	10427313	10435293	C_unshiu_02340:mRNA_1.1	C_unshiu_02340	2005	8306	DNA repair protein reca, putative	AGI-05	42.191
Tf0011.2		OOthers	O	-	-	-	-	-		Ciclev10018614m	scaffold_3	11078798	11089090	C_unshiu_02207:mRNA_3.1	C_unshiu_02207	9802	19021	Hypothetical protein	AGI-05	42.191
Cp0106		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10020606m	scaffold_3	11867765	11869679	C_unshiu_00741:mRNA_6.1	C_unshiu_00741	44989	55203	Wall associated kinase-like 6, putative	AGI-03	40.566
Af1273			-	-	-	-	-	-		Ciclev10024624m	scaffold_3	12214029	12215007
Af1390			-	-	-	-	-	-		Ciclev10021895m	scaffold_3	12254177	12259003
Cp2145			-	-	-	-	-	-		Ciclev10021983m	scaffold_3	12413337	12415802
Af1007			-	-	-	-	-	-		Ciclev10021398m	scaffold_3	12814731	12817148
Cp1628			-	-	-	-	-	-		Ciclev10021963m	scaffold_3	12822911	12825620	C_unshiu_02666:mRNA_2.1	C_unshiu_02666	10104	12687	Rhodanese/cell cycle control phosphatase superfamily protein	AGI-05	41.272
Af1684			-	-	-	-	-	-		Ciclev10022811m	scaffold_3	12901463	12904143
Cp2147			-	-	-	-	-	-		Ciclev10019578m	scaffold_3	12945481	12949086
Vt0011		AAvailable marker	-	-	-	-	O	O		Ciclev10021162m	scaffold_3	12984411	12986574	C_unshiu_00337:mRNA_2.1	C_unshiu_00337	2684	6536	Subtilase family protein	AGI-05	41.306			JtR-05	37.780
Tf0375			-	-	-	-	-	-		Ciclev10022365m	scaffold_3	13034654	13036082	C_unshiu_00020:mRNA_62.1	C_unshiu_00020	527751	528816	Homeobox leucine zipper protein	AGI-05	40.558
Af1431			-	-	-	-	-	-		Ciclev10019463m	scaffold_3	13145188	13150117
Cp1627		AAvailable marker	-	-	-	-	O	O		Ciclev10022024m	scaffold_3	13309398	13310636	C_unshiu_00431:mRNA_6.1	C_unshiu_00431	44507	45451	Chloroplast small heat shock protein	AGI-05	41.272
Af0013			-	-	-	-	-	-		Ciclev10023060m	scaffold_3	13416061	13417219
Fb0364		AAvailable marker	-	-	-	-	O	O	SI373	Ciclev10022215m	scaffold_3	13810497	13813004	C_unshiu_00542:mRNA_3.1	C_unshiu_00542	15940	18433	Nascent polypeptide-associated complex subunit alpha-like protein	AGI-05	41.306	KmG-05S	55.482	JtR-05	39.609			RP-05	56.834
Tf0135			-	-	-	-	-	-		Ciclev10019781m	scaffold_3	13977377	13980070
Ov0515			-	-	-	-	-	-		Ciclev10020337m	scaffold_3	14878427	14882285	C_unshiu_01955:mRNA_4.1	C_unshiu_01955	21970	26584	DUF760 family protein			KmG-01	40.558
Cp0280			-	-	-	-	-	-		Ciclev10020337m	scaffold_3	14878427	14882285
Cp1330			-	-	-	-	-	-		Ciclev10019667m	scaffold_3	14898168	14903449
Cp0319			-	-	-	-	-	-		Ciclev10021170m	scaffold_3	14993579	14994805
Cte998			-	-	-	-	-	-		Ciclev10020767m	scaffold_3	16078619	16080683
Af1047			-	-	-	-	-	-		Ciclev10019002m	scaffold_3	16357227	16363309	C_unshiu_01252:mRNA_3.1	C_unshiu_01252	60669	66705	NADH dehydrogenase subunit 11	AGI-05	41.306
Af1048			-	-	-	-	-	-		Ciclev10019002m	scaffold_3	16357227	16363309
Ov0019			-	-	-	-	-	-		Ciclev10019002m	scaffold_3	16357227	16363309
Af1500			-	-	-	-	-	-		Ciclev10022594m	scaffold_3	16957427	16959735
Tf0153		AAvailable marker	O	-	-	-	O	O		Ciclev10022594m	scaffold_3	16957427	16959735	C_unshiu_01562:mRNA_2.1	C_unshiu_01562	12059	15864	Nascent polypeptide-associated complex subunit beta	AGI-05	41.267
Tf0154		AAvailable marker	O	-	-	-	-	O		Ciclev10022594m	scaffold_3	16957427	16959735	C_unshiu_01562:mRNA_2.1	C_unshiu_01562	12059	15864	Nascent polypeptide-associated complex subunit beta
Lp0109		OOthers	O	-	-	-	-	-		Ciclev10020902m	scaffold_3	17561127	17562695
Ov0311			-	-	-	-	-	-		Ciclev10022001m	scaffold_3	18341166	18342395	C_unshiu_00417:mRNA_9.1	C_unshiu_00417	93426	94543	Kunitz trypsin inhibitor			KmG-04	10.598			NAT-09	82.730
Wy0002			-	-	-	-	-	-		Ciclev10022129m	scaffold_3	18472967	18473951
Af1635			-	-	-	-	-	-		Ciclev10020874m	scaffold_3	18517469	18520307
Cp0190		OOthers	-	-	-	-	-	-		Ciclev10023646m	scaffold_3	18648426	18650443	C_unshiu_00618:mRNA_5.1	C_unshiu_00618	20273	22297	UPF0426 protein, chloroplastic	AGI-06	27.617
Cp2088			-	-	-	-	-	-		Ciclev10021333m	scaffold_3	19244783	19251332
Tf0028			-	-	-	-	-	-	SI377	Ciclev10022572m	scaffold_3	19780711	19782241	C_unshiu_00443:mRNA_20.1	C_unshiu_00443	195567	202424	MADS-box transcription factor
Tf0128.2			-	-	-	-	-	-		Ciclev10023354m	scaffold_3	19936499	19941380
Af1115			-	-	-	-	-	-		Ciclev10020832m	scaffold_3	20577786	20583404
Cp0464			-	-	-	-	-	-		Ciclev10021386m	scaffold_3	20750712	20753437
Bf0416			-	-	-	-	-	-		Ciclev10020574m	scaffold_3	20762974	20770394
Cp1483			-	-	-	-	-	-		Ciclev10020574m	scaffold_3	20762974	20770394	C_unshiu_00692:mRNA_14.1	C_unshiu_00692	122321	129331	Abhydrolase domain-containing protein 11	AGI-05	41.162
Cp0832			-	-	-	-	-	-		Ciclev10021626m	scaffold_3	20931939	20936268
Cp1556		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10018756m	scaffold_3	21432494	21440948	C_unshiu_00175:mRNA_9.1	C_unshiu_00175	91338	99600	Bifunctional aspartokinase/homoserine dehydrogenase 2, chloroplastic	AGI-05	40.337
Cp0160			-	-	-	-	-	-		Ciclev10019883m	scaffold_3	21940551	21944032	C_unshiu_00272:mRNA_20.1	C_unshiu_00272	187755	191248	Endoglucanase	AGI-05	41.267
Tf0007			-	-	-	-	-	-		Ciclev10018564m	scaffold_3	22721217	22725936
Af1058			-	-	-	-	-	-		Ciclev10018655m	scaffold_3	23001026	23009675
Af1337			-	-	-	-	-	-		Ciclev10024178m	scaffold_3	23419574	23420180
Tf0122			-	-	-	-	-	-		Ciclev10020009m	scaffold_3	24620623	24627357	C_unshiu_02869:mRNA_1.1	C_unshiu_02869	1885	10204	Hypothetical protein	AGI-05	41.306
Cp0278			-	-	-	-	-	-		Ciclev10022561m	scaffold_3	24750794	24752907	C_unshiu_00286:mRNA_8.1	C_unshiu_00286	73068	81236	Hypothetical protein	AGI-04	122.142
Af1272			-	-	-	-	-	-		Ciclev10019689m	scaffold_3	24796351	24800588
Af1087			O	-	-	-	-	-		Ciclev10019689m	scaffold_3	24796351	24800588	C_unshiu_00286:mRNA_17.1	C_unshiu_00286	132648	135466	Glycine hydroxymethyltransferase	AGI-05	41.306
Ov0420		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10019489m	scaffold_3	24840386	24845254	C_unshiu_00286:mRNA_25.1	C_unshiu_00286	176709	181573	Methylenetetrahydrofolate reductase (NAD(P)H)	AGI-05	41.306			JtR-05	41.208
Ov0421	Ov0420.2		-	-	-	-	-	-		Ciclev10019489m	scaffold_3	24840386	24845254
Bf0184			O	-	-	-	-	-		Ciclev10021248m	scaffold_3	24893551	24898675	C_unshiu_00286:mRNA_27.1	C_unshiu_00286	216376	220366	Cysteine protease ATG4B	AGI-05	41.306
Af1606			-	-	-	-	-	-		Ciclev10021248m	scaffold_3	24893551	24898675
Al0511			-	-	-	-	-	-		Ciclev10020158m	scaffold_3	25053425	25057795
Af0016			-	-	-	-	-	-		Ciclev10022861m	scaffold_3	25074163	25075916	C_unshiu_00117:mRNA_7.1	C_unshiu_00117	38949	40765	Hypothetical protein	AGI-05	41.306
Cp0921		OOthers	-	-	-	-	-	-		Ciclev10022149m	scaffold_3	25448858	25451858
Cp0920			-	-	-	-	-	-		Ciclev10020914m	scaffold_3	25452062	25455844
Al0412			-	-	-	-	-	-		Ciclev10023374m	scaffold_3	25612741	25615635
Af1605			-	-	-	-	-	-		Ciclev10021314m	scaffold_3	26297949	26304739
Mf0012		AAvailable marker	-	-	-	-	-	O	SI131	Ciclev10019300m	scaffold_3	26517176	26525778	No
Tf0071			-	-	-	-	-	-	SI084,SI146	Ciclev10022102m	scaffold_3	26610747	26612959	C_unshiu_00167:mRNA_6.1	C_unshiu_00167	57300	62494	HAUS augmin-like complex subunit	AGI-03	46.274
Af1581			-	-	-	-	-	-		Ciclev10024663m	scaffold_3	27092414	27093612
Mf0085			-	-	-	-	-	-		Ciclev10018526m	scaffold_3	28293142	28298913
Ov0503		AtAvailable marker	O	-	-	-	-	O		Ciclev10020582m	scaffold_3	28382218	28386683	C_unshiu_00585:mRNA_5.1	C_unshiu_00585	31636	34824	60S ribosomal protein L5							NAT-05	19.042
Ov0504	Ov0503.2		-	-	-	-	-	-		Ciclev10020582m	scaffold_3	28382218	28386683
Gn0056			-	-	-	-	-	-		Ciclev10020582m	scaffold_3	28382218	28386683	C_unshiu_00585:mRNA_5.1	C_unshiu_00585	31636	34824	60S ribosomal protein L5	AGI-05	39.424
Af1168			-	-	-	-	-	-		Ciclev10022842m	scaffold_3	28389625	28390574
Tf0053			-	-	-	-	-	-	SI305	Ciclev10022321m	scaffold_3	29153425	29156189	C_unshiu_01169:mRNA_3.1	C_unshiu_01169	39141	41442	Peptide methionine sulfoxide reductase B5	AGI-05	42.265
Af1342			-	-	-	-	-	-		Ciclev10020692m	scaffold_3	29292111	29295993
Af1040			-	-	-	-	-	-		Ciclev10019364m	scaffold_3	29351854	29354190
Gn0064		ULess informative for main cultivars	O	-	-	-	-	-	SI144,SI380	Ciclev10019364m	scaffold_3	29351854	29354190	C_unshiu_00549:mRNA_6.1	C_unshiu_00549	39588	41921	9-cis-epoxycarotenoid dioxygenase 1	AGI-05	42.191							RP-05	51.531
Wy0063	Wy0063.em		-	-	-	-	-	-		Ciclev10021336m	scaffold_3	29395094	29402560	C_unshiu_00549:mRNA_8.1	C_unshiu_00549	83149	90542	Splicing regulatory glutamine/lysine-rich protein 1	AGI-01	33.445
Wy0064	Wy0064.em		-	-	-	-	-	-		Ciclev10021336m	scaffold_3	29395094	29402560	C_unshiu_00549:mRNA_8.1	C_unshiu_00549	83149	90542	Splicing regulatory glutamine/lysine-rich protein 1
Al0405			-	-	-	-	-	-		Ciclev10024622m	scaffold_3	30021998	30023908
Af1400			-	-	-	-	-	-		Ciclev10024198m	scaffold_3	30042140	30047495
Af2871			-	-	-	-	-	-		Ciclev10019876m	scaffold_3	30066339	30070903
Cp0532			-	-	-	-	-	-		Ciclev10020319m	scaffold_3	30393811	30398972	C_unshiu_00501:mRNA_15.1	C_unshiu_00501	133280	137847	Solanesyl diphosphate synthase	AGI-05	42.168
Lp0102		MDisagree by Marco analysis	O	-	-	-	-	-	SI080,SI319,SI360,SI378	Ciclev10020840m	scaffold_3	30648732	30651259	C_unshiu_00759:mRNA_1.1	C_unshiu_00759	917	3353	Senescence-related gene 1	AGI-05	42.737	KmG-05S	41.895	JtR-05	28.682	NAT-05	37.917	RP-05	51.879
Af1641			-	-	-	-	-	-		Ciclev10021239m	scaffold_3	30721842	30725003
Af1612			-	-	-	-	-	-		Ciclev10018748m	scaffold_3	30784119	30796076
Tf0183			-	-	-	-	-	-		Ciclev10021488m	scaffold_3	30873886	30877367
Af1654			-	-	-	-	-	-		Ciclev10020789m	scaffold_3	31133566	31137650
Mf0087			-	-	-	-	-	-		Ciclev10023194m	scaffold_3	32063430	32064847
Af1184			-	-	-	-	-	-		Ciclev10019895m	scaffold_3	32105774	32108155
Tf0089			-	-	-	-	-	-		Ciclev10020367m	scaffold_3	32895854	32900578
Tf0421			-	-	-	-	-	-		Ciclev10020367m	scaffold_3	32895854	32900578
Tf0352			-	-	-	-	-	-		Ciclev10022757m	scaffold_3	32904023	32906262
Af1496			-	-	-	-	-	-		Ciclev10022757m	scaffold_3	32904023	32906262
Mf0065			-	-	-	-	-	-		Ciclev10021816m	scaffold_3	32925664	32929662
Ov0112		OOthers	-	-	-	-	-	-		Ciclev10021050m	scaffold_3	33252463	33253730	C_unshiu_01571:mRNA_4.1	C_unshiu_01571	43836	45084	Sulfotransferase			KmG-05S	42.335					RP-05	53.076
Ov0113	Ov0112.2		-	-	-	-	-	-		Ciclev10021050m	scaffold_3	33252463	33253730
Tf0133.2			-	-	-	-	-	-		Ciclev10018575m	scaffold_3	33349690	33357142
Gmom05			-	-	-	-	-	-		Ciclev10024623m	scaffold_3	33722934	33727855
Cp0748			-	-	-	-	-	-		Ciclev10022288m	scaffold_3	34673451	34674900	C_unshiu_00669:mRNA_14.1	C_unshiu_00669	103814	104779	Light-dependent short hypocotyls protein	AGI-01	33.562
Tf0353		MDisagree by Marco analysis	O	-	-	-	-	-	SI087	Ciclev10018691m	scaffold_3	34696661	34702240	C_unshiu_00669:mRNA_17.2	C_unshiu_00669	126539	133312	Cell division cycle 5-like protein	AGI-08	53.069
Lp0301.2			-	-	-	-	-	-		Ciclev10020671m	scaffold_3	35321971	35324490
Gn0072.2			-	-	-	-	-	-		Ciclev10020671m	scaffold_3	35321971	35324490
Gn0072.3			-	-	-	-	-	-		Ciclev10020671m	scaffold_3	35321971	35324490
Ov0516			-	-	-	-	-	-		Ciclev10020524m	scaffold_3	35332191	35335063
Af1317			-	-	-	-	-	-		Ciclev10022803m	scaffold_3	35932198	35935023
Lp0225			-	-	-	-	-	-		Ciclev10020487m	scaffold_3	35943915	35948556
Lp0111			-	-	-	-	-	-		Ciclev10022339m	scaffold_3	36096009	36099799
Af1151			-	-	-	-	-	-		Ciclev10022903m	scaffold_3	36608197	36611090
Af1427			-	-	-	-	-	-		Ciclev10021942m	scaffold_3	36963026	36965935
Af1192			-	-	-	-	-	-		Ciclev10022723m	scaffold_3	37094785	37098257
Af1592			-	-	-	-	-	-		Ciclev10021425m	scaffold_3	37597624	37600961
Tf0012		AAvailable marker	-	-	-	-	O	O		Ciclev10018673m	scaffold_3	37601493	37607586	C_unshiu_00502:mRNA_21.1	C_unshiu_00502	155419	162660	Protein NLP8	AGI-05	47.173
Al0024.2			-	-	-	-	-	-		Ciclev10020911m	scaffold_3	37863407	37865625
Bf0401			-	-	-	-	-	-		Ciclev10019609m	scaffold_3	37906090	37910975
Cp0646			-	-	-	-	-	-		Ciclev10020263m	scaffold_3	38111191	38116265
Bf0121			-	-	-	-	-	-		Ciclev10020263m	scaffold_3	38111191	38116265
Tf0411		OOthers	O	-	-	-	-	-		Ciclev10020263m	scaffold_3	38111191	38116265	C_unshiu_00523:mRNA_15.1	C_unshiu_00523	100297	104594	Putative transcription factor PosF21	AGI-05	48.613
Tf0146		OOthers	-	-	-	-	-	-		Ciclev10020263m	scaffold_3	38111191	38116265
Tf0081			-	-	-	-	-	-	SI038,SI324	Ciclev10021980m	scaffold_3	38214468	38216861	C_unshiu_00575:mRNA_8.1	C_unshiu_00575	47693	51431	Leucine-rich repeat disease resistance protein-like	AGI-05	48.590
Wy0013			-	-	-	-	-	-		Ciclev10021105m	scaffold_3	38229221	38232245
Af1374			-	-	-	-	-	-		Ciclev10022450m	scaffold_3	39092285	39094629
Af1165			-	-	-	-	-	-		Ciclev10021620m	scaffold_3	39331731	39333098
Af1587			-	-	-	-	-	-		Ciclev10022920m	scaffold_3	39483387	39486219
Af1287			-	-	-	-	-	-		Ciclev10022137m	scaffold_3	39601128	39604586
Fb2159			-	-	-	-	-	-	SI205,SI300	Ciclev10021136m	scaffold_3	39606431	39608387	C_unshiu_00037:mRNA_76.1	C_unshiu_00037	551437	553057	Pirin family protein	AGI-05	49.856	KmG-05S	68.781	JtR-05	41.770			SA-09
Lp0133		AtAvailable marker	O	-	-	-	O	O		Ciclev10021187m	scaffold_3	39657613	39660222	C_unshiu_00037:mRNA_84.1	C_unshiu_00037	603033	605555	Class I chitinase	AGI-05	48.590	KmG-05S	60.040			NAT-05	26.483	RP-05	65.128
Lp0137			-	-	-	-	-	-		Ciclev10021187m	scaffold_3	39657613	39660222
Af1328			-	-	-	-	-	-		Ciclev10022653m	scaffold_3	39834680	39837971
Af1685			-	-	-	-	-	-		Ciclev10023782m	scaffold_3	40086985	40089114	C_unshiu_00335:mRNA_9.1	C_unshiu_00335	76164	77436	Hypothetical protein	AGI-05	56.481
Af1068			O	-	-	-	-	-		Ciclev10021732m	scaffold_3	40110008	40113420	C_unshiu_00335:mRNA_13.1	C_unshiu_00335	99790	103133	Protein vip1	AGI-05	48.750
Af1662			-	-	-	-	-	-

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Target: Genome/map	Scaffold/LG