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
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
Tf0235		MDisagree by Marco analysis	O	-	-	O	-	-		Ciclev10030472m	scaffold_4	17057658	17074755	C_unshiu_00225:mRNA_13.1	C_unshiu_00225	75706	96678	TATA-binding protein-associated factor 172	AGI-07	43.879
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
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
Gn0043		MDisagree by Marco analysis	-	-	-	O	-	-	SI323	Ciclev10027790m	scaffold_8	21953129	21960709	C_unshiu_02574:mRNA_1.1	C_unshiu_02574		2470	Class III homeodomain leucine zipper protein	AGI-08	30.721	KmG-08	27.458
Al0413		AAvailable marker	-	-	-	O	O	O	SI275,SI299	Ciclev10004620m	scaffold_9	7579900	7583093	C_unshiu_00063:mRNA_61.1	C_unshiu_00063	483279	486427	Chloroplast beta-amylase 3	AGI-03	46.197	KmG-032	19.570	JtR-031	10.395			RP-03	33.559
Tf0271		Bno homozygous cultivar with minor allele	O	O	-	O	-	-		Ciclev10010976m	scaffold_6	11707953	11715646	C_unshiu_01619:mRNA_7.1	C_unshiu_01619	42347	50640	CCR4-NOT transcription complex subunit 4	AGI-08	95.613
Tf0326		AAvailable marker	O	O	-	O	O	O	SI085	Ciclev10024695m	scaffold_7	2501520	2509737	C_unshiu_02417:mRNA_1.1	C_unshiu_02417	3692	11684	Histone-lysine N-methyltransferase SUVR5	AGI-02	69.928
Tf0062		Bno homozygous cultivar with minor allele	O	-	-	O	-	-	SI223	Ciclev10012377m	scaffold_6	11826472	11830875	C_unshiu_00207:mRNA_24.2	C_unshiu_00207	252955	255240	Transcription factor ASG4	AGI-08	93.624
If0208		AAvailable marker	-	O	-	O	O	O	SI083,SI317	Ciclev10001680m	scaffold_5	40628244	40630241	C_unshiu_00234:mRNA_9.1	C_unshiu_00234	94988	99176	TRNA-processing ribonuclease BN	AGI-09	39.296	KmG-09	72.036	JtR-09S	115.150	NAT-09	89.867
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
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
Mf0097		AAvailable marker	O	O	-	O	O	O	SI235,SI365					No					AGI-07	44.663	KmG-07	50.959	JtR-07	44.863	NAT-07	3.290	RP-07	46.168
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
Bf0029		MDisagree by Marco analysis	-	-	-	O	-	-	SI193,SI283					C_unshiu_00564:mRNA_19.1	C_unshiu_00564	138967	142178	Limonene synthase	AGI-09	84.912	KmG-09	24.379	JtR-09S	5.526
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
Bf0145			O	-	-	O	-	-	SI272,SI327,SI368	Ciclev10027909m	scaffold_8	22730839	22737522	C_unshiu_00158:mRNA_13.1	C_unshiu_00158	102548	109253	Pseudo-response regulator 37	AGI-08	20.703							RP-08	5.775
Tf0150		AAvailable marker	O	O	-	O	O	O	SI262	Ciclev10028292m	scaffold_8	22191056	22193554	C_unshiu_01354:mRNA_7.2	C_unshiu_01354	51348	53833	Zinc finger protein JACKDAW	AGI-08	25.220
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
Af1255			-	-	-	-	-	-		Ciclev10006003m	scaffold_9	28061221	28063450
Af1520			-	-	-	-	-	-		Ciclev10015124m	scaffold_2	7360380	7367946
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
Bf0180			-	-	-	-	-	-		Ciclev10028147m	scaffold_8	21112804	21117215
Cp1050			-	-	-	-	-	-		Ciclev10032471m	scaffold_4	1537835	1540818
Fb0346			-	-	-	-	-	-		Ciclev10021000m	scaffold_3	2002427	2008126
Lp0024		HDisagree on Clementine haploid genotype	O	-	-	-	-	-	SI010,SI302	Ciclev10026549m	scaffold_7	1309884	1311067	C_unshiu_00218:mRNA_20.1	C_unshiu_00218	98317	107740	Heterogeneous nuclear ribonucleoprotein Q	AGI-02	74.555							RP-02.2	17.330
Ov0129	Ov0129.k		-	-	-	-	-	-		Ciclev10030928m	scaffold_4	2717014	2719856
Tf0166			-	-	-	-	-	-	SI156	Ciclev10000524m	scaffold_5	19682579	19686163	C_unshiu_00050:mRNA_13.1	C_unshiu_00050	140837	153470	Hypothetical protein	AGI-09	101.351
Tf0442			-	-	-	-	-	-		Ciclev10029160m	scaffold_8	23158292	23161424
Af0001			-	-	-	-	-	-		Ciclev10033102m	scaffold_4	25190682	25192326
Af1256			-	-	-	-	-	-		Ciclev10008233m	scaffold_1	940514	942972
Af1521			-	-	-	-	-	-		Ciclev10004680m	scaffold_9	9799746	9804461
Al0216			-	-	-	-	-	-		Ciclev10007632m	scaffold_1	7359982	7369305
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
Cp1056			-	-	-	-	-	-		Ciclev10012459m	scaffold_6	20024370	20027538
Fb0357			O	-	-	-	-	-	SI384	Ciclev10001633m	scaffold_5	40550222	40554434	C_unshiu_00889:mRNA_6.1	C_unshiu_00889	44175	51825	Hypothetical protein	AGI-09	39.104
Lp0025			-	-	-	-	-	-		Ciclev10009567m	scaffold_1	25816949	25818472
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
Tf0167			-	-	-	-	-	-	SI230,SI241,SI247	Ciclev10030998m	scaffold_4	17143350	17147918	C_unshiu_00478:mRNA_2.1	C_unshiu_00478	19232	27824	Sigma factor	AGI-07	46.244
Tf0443			-	-	-	-	-	-		Ciclev10012193m	scaffold_6	5886744	5892919
Af0002			-	-	-	-	-	-		Ciclev10026803m	scaffold_7	9468245	9468907
Af1257			-	-	-	-	-	-		Ciclev10033061m	scaffold_4	25059045	25061910
Af1522			-	-	-	-	-	-		Ciclev10026433m	scaffold_7	1507804	1510299
Al0217		Bno homozygous cultivar with minor allele	-	-	-	-	-	-	SI350	Ciclev10022061m	scaffold_3	1203357	1206483	No							KmG-05S		JtR-05	25.182
Bf0183			O	-	-	-	-	-	SI308	Ciclev10005208m	scaffold_9	5254416	5256826	C_unshiu_01106:mRNA_9.1	C_unshiu_01106	77275	79234	Hypothetical protein
Cp1067			-	-	-	-	-	-		Ciclev10014572m	scaffold_2	188504	192741
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
Lp0026			-	-	-	-	-	-		Ciclev10030880m	scaffold_4	3323209	3331825
Ov0302	Ov0301.2		-	-	-	-	-	-		Ciclev10021068m	scaffold_3	5360113	5362918	C_unshiu_00442:mRNA_18.1	C_unshiu_00442	163615	166153	Transcription factor
Tf0444			-	-	-	-	-	-		Ciclev10029022m	scaffold_8	10574673	10578797
Af0003			-	-	-	-	-	-		Ciclev10017107m	scaffold_2	11373565	11374539
Af1258			-	-	-	-	-	-		Ciclev10029223m	scaffold_8	24591409	24594117
Af1523			-	-	-	-	-	-		Ciclev10031240m	scaffold_4	6231492	6235447
Al0218.2			-	-	-	-	-	-		Ciclev10022061m	scaffold_3	1203357	1206483
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
Cp1081			-	-	-	-	-	-		Ciclev10024992m	scaffold_7	7826603	7829404
Fb0365			O	-	-	-	-	-	SI036,SI320	Ciclev10026391m	scaffold_7	20872462	20874659	C_unshiu_00098:mRNA_41.1	C_unshiu_00098	264947	272086	Hypothetical protein	AGI-02	31.596	KmG-02		JtR-02	-4.953
Lp0027			-	-	-	-	-	-		Ciclev10032174m	scaffold_4	14967254	14971449
Ov0303			-	-	-	-	-	-		Ciclev10011600m	scaffold_6	25160851	25164999
Tf0169			-	-	-	-	-	-		Ciclev10004115m	scaffold_9	2284484	2302268
Tf0445			-	-	-	-	-	-		Ciclev10029260m	scaffold_8	6065092	6068908
Af0004			O	-	-	-	-	-		Ciclev10025125m	scaffold_7	8447414	8453714	C_unshiu_00290:mRNA_10.1	C_unshiu_00290	83615	110154	Hypothetical protein	AGI-02	2.847
Af1259			-	-	-	-	-	-		Ciclev10030701m	scaffold_4	15528851	15538252
Af1524			-	-	-	-	-	-		Ciclev10025757m	scaffold_7	9325319	9327565
Al0219			-	-	-	-	-	-		Ciclev10028236m	scaffold_8	793820	798369
Bf0189			-	-	-	-	-	-						C_unshiu_00008:mRNA_66.1	C_unshiu_00008	372226	374586	Ferritin									RP-04	15.774
Cp1084		OOthers	-	-	-	-	-	-						C_unshiu_01090:mRNA_3.1	C_unshiu_01090	23084	26817	Sesquiterpene synthase	AGI-08	44.577
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
Lp0028			-	-	-	-	-	-		Ciclev10014842m	scaffold_2	22362548	22366644
Ov0304			-	-	-	-	-	-		Ciclev10000702m	scaffold_5	6482366	6484923
Tf0170			-	-	-	-	-	-		Ciclev10005681m	scaffold_9	31237089	31243866
Tf0446			-	-	-	-	-	-		Ciclev10020000m	scaffold_3	42990251	42995979
Af0005			-	-	-	-	-	-		Ciclev10005894m	scaffold_9	2452853	2455181
Af1260			-	-	-	-	-	-		Ciclev10001188m	scaffold_5	38869666	38875561
Af1525			-	-	-	-	-	-		Ciclev10032893m	scaffold_4	3636667	3641089
Al0220			-	-	-	-	-	-		Ciclev10008097m	scaffold_1	3683537	3688814
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
Cp1085			-	-	-	-	-	-		Ciclev10025935m	scaffold_7	2390010	2391658	C_unshiu_00025:mRNA_42.1	C_unshiu_00025	337060	338142	Putative geranylgeranyl pyrophosphate synthase 3-like	AGI-02	70.082
Fb0372			-	-	-	-	-	-	SI343,SI052	Ciclev10002666m	scaffold_5	35123213	35124730	C_unshiu_00042:mRNA_34.1	C_unshiu_00042	237022	238272	Ubiquitin-fold modifier-conjugating enzyme 1	AGI-09	59.896
Lp0029			-	-	-	-	-	-		Ciclev10003645m	scaffold_5	329518	331024
Ov0305		MDisagree by Marco analysis	O	-	-	-	-	-	SI028,SI292	Ciclev10012499m	scaffold_6	16909492	16912088	C_unshiu_00008:mRNA_65.1	C_unshiu_00008	366943	369504	40S ribosomal protein S4	AGI-08	88.433	KmG-04	45.755					RP-04	15.410
Tf0171			-	-	-	-	-	-		Ciclev10030688m	scaffold_4	25466629	25472365
Tf0447			-	-	-	-	-	-		Ciclev10021000m	scaffold_3	2002427	2008126
Af0006			-	-	-	-	-	-		Ciclev10001011m	scaffold_5	36883103	36887975
Af1261			-	-	-	-	-	-		Ciclev10027978m	scaffold_8	20321003	20329872
Af1526			-	-	-	-	-	-		Ciclev10001454m	scaffold_5	38852547	38855263
Al0221			-	-	-	-	-	-
Bf0195			-	-	-	-	-	-	SI369	Ciclev10000780m	scaffold_5	31069237	31075092	C_unshiu_00422:mRNA_5.1	C_unshiu_00422	35322	40511	Sodium/hydrogen exchanger 2	AGI-09	74.076
Cp1086			-	-	-	-	-	-		Ciclev10025935m	scaffold_7	2390010	2391658
Fb0373			O	-	-	-	-	-		Ciclev10000030m	scaffold_5	6404463	6435349	C_unshiu_00034:mRNA_15.1	C_unshiu_00034	150102	178260	ATP-dependent RNA helicase DHX29	AGI-09	85.810	KmG-09	22.909	JtR-09S	7.995			RP-09	0.104
Lp0030			-	-	-	-	-	-		Ciclev10031831m	scaffold_4	23185703	23187916
Ov0306		OOthers	-	-	-	-	-	-	SI382	Ciclev10026199m	scaffold_7	224443	227133	No					AGI-02	79.663	KmG-02	72.516	JtR-02	8.671	NAT-02S	60.000
Tf0172			O	-	-	-	-	-		Ciclev10026400m	scaffold_7	9976621	9980176	C_unshiu_00496:mRNA_5.1	C_unshiu_00496	48069	50951	Auxin-induced protein IAA6	AGI-02	10.638
Tf0448			-	-	-	-	-	-		Ciclev10026715m	scaffold_7	252320	254049
Af0007			-	-	-	-	-	-		Ciclev10031118m	scaffold_4	17014582	17026325
Af1262			-	-	-	-	-	-		Ciclev10009571m	scaffold_1	28424576	28427136
Af1527			-	-	-	-	-	-		Ciclev10033122m	scaffold_4	17175041	17177917
Al0222			-	-	-	-	-	-		Ciclev10015548m	scaffold_2	30607996	30610863
Bf0197			-	-	-	-	-	-		Ciclev10025476m	scaffold_7	5654376	5658039
Cp1093			-	-	-	-	-	-		Ciclev10009636m	scaffold_1	16696979	16699623
Fb0374			-	-	-	-	-	-		Ciclev10002014m	scaffold_5	6777322	6781162
Lp0031			-	-	-	-	-	-		Ciclev10027944m	scaffold_8	22261408	22266208	C_unshiu_00639:mRNA_5.1	C_unshiu_00639	45321	49901	N-terminal isoform 1	AGI-08	9.183
Ov0307		OOthers	-	-	-	-	-	-		Ciclev10015790m	scaffold_2	4937047	4940138
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
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
Af0008			-	-	-	-	-	-		Ciclev10017323m	scaffold_2	32749064	32749699
Af1263			-	-	-	-	-	-		Ciclev10005448m	scaffold_9	28494348	28496251
Af1528			-	-	-	-	-	-		Ciclev10009892m	scaffold_1	1676368	1677018
Al0223			-	-	-	-	-	-		Ciclev10011771m	scaffold_6	17438270	17440122	C_unshiu_00008:mRNA_127.1	C_unshiu_00008	890026	891371	CBL-interacting serine/threonine-protein kinase 11									RP-04	17.965
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
Cp1111		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10024860m	scaffold_7	8603450	8610239	C_unshiu_00290:mRNA_28.1	C_unshiu_00290	241335	248051	Cell division protein ftsH, putative isoform 1	AGI-02	5.054
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
Lp0032		Bno homozygous cultivar with minor allele	-	-	-	-	-	-	SI286					C_unshiu_00679:mRNA_13.1	C_unshiu_00679	124222	132199	CwfJ-like family protein, putative isoform 1
Ov0308			-	-	-	-	-	-		Ciclev10032476m	scaffold_4	16730150	16735004
Tf0175			-	-	-	-	-	-		Ciclev10010825m	scaffold_1	5054551	5056146
Tf0450			-	-	-	-	-	-		Ciclev10021535m	scaffold_3	50399571	50401808
Af0009			-	-	-	-	-	-		Ciclev10024461m	scaffold_3	50406028	50412944
Af1264			-	-	-	-	-	-		Ciclev10026609m	scaffold_7	18539347	18543298
Af1529			-	-	-	-	-	-		Ciclev10005711m	scaffold_9	21228791	21231253
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
Bf0201			-	-	-	-	-	-		Ciclev10015180m	scaffold_2	29370560	29376244
Cp1113			-	-	-	-	-	-		Ciclev10004638m	scaffold_9	987368	992630
Fb0423			O	-	-	-	-	-		Ciclev10020919m	scaffold_3	867235	871452
Lp0033			-	-	-	-	-	-		Ciclev10016127m	scaffold_2	30923398	30926574
Ov0309			-	-	-	-	-	-		Ciclev10022230m	scaffold_3	8078609	8083078
Tf0176			-	-	-	-	-	-		Ciclev10008476m	scaffold_1	385469	388179	C_unshiu_00003:mRNA_163.1	C_unshiu_00003	1226924	1232429	Hypothetical protein									RP-01
Tf0451			-	-	-	-	-	-		Ciclev10011164m	scaffold_6	14694513	14700102
Af0010			-	-	-	-	-	-		Ciclev10004080m	scaffold_5	40297492	40299711
Af1265			-	-	-	-	-	-		Ciclev10031646m	scaffold_4	22789104	22792252
Af1530			-	-	-	-	-	-		Ciclev10013041m	scaffold_6	20092033	20095946
Al0225			-	-	-	-	-	-		Ciclev10001539m	scaffold_5	41093725	41097411	C_unshiu_01543:mRNA_6.1	C_unshiu_01543	34106	35343	DNA glycosylase superfamily protein			KmG-01	9.277
Bf0202			-	-	-	-	-	-		Ciclev10000607m	scaffold_5	24103753	24107361	C_unshiu_00011:mRNA_55.1	C_unshiu_00011	511309	514460	Protein ETHYLENE INSENSITIVE 3									RP-09	27.641
Cp1114			-	-	-	-	-	-		Ciclev10004644m	scaffold_9	870926	875408
Fb0478			-	-	-	-	-	-		Ciclev10008010m	scaffold_1	14592248	14596429	C_unshiu_00071:mRNA_18.1	C_unshiu_00071	196512	200666	Beta-glucosidase 44	AGI-01	61.025
Lp0034		ULess informative for main cultivars	O	-	-	-	-	-						C_unshiu_00087:mRNA_54.1	C_unshiu_00087	395005	398280	Peroxisomal membrane protein 13
Ov0310			-	-	-	-	-	-		Ciclev10023404m	scaffold_3	48463395	48465325	C_unshiu_00026:mRNA_46.1	C_unshiu_00026	334715	336716	Lanatoside 15-O-acetylesterase			KmG-01	21.291	JtR-01S	61.287
Tf0177			-	-	-	-	-	-	SI133	Ciclev10008476m	scaffold_1	385469	388179	C_unshiu_00003:mRNA_163.1	C_unshiu_00003	1226924	1232429	Hypothetical protein
Tf0452			-	-	-	-	-	-		Ciclev10014198m	scaffold_2	31740431	31747095
Af0011			-	-	-	-	-	-		Ciclev10025929m	scaffold_7	11357990	11362560
Af1266			-	-	-	-	-	-		Ciclev10032367m	scaffold_4	8400378	8404853
Af1531			-	-	-	-	-	-		Ciclev10008796m	scaffold_1	4984340	4987674
Al0226			-	-	-	-	-	-		Ciclev10012002m	scaffold_6	2571941	2573984
Bf0203			-	-	-	-	-	-		Ciclev10022162m	scaffold_3	42410482	42413511
Cp1115			-	-	-	-	-	-		Ciclev10005600m	scaffold_9	729077	730936
Fb0708			-	-	-	-	-	-		Ciclev10005455m	scaffold_9	31237089	31243737	C_unshiu_00003:mRNA_112.1	C_unshiu_00003	803488	808730	Zinc finger CCCH domain-containing protein 32	AGI-03	74.195			JtR-032	19.857
Lp0035			-	-	-	-	-	-		Ciclev10005111m	scaffold_9	27259813	27263097
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
Tf0178			-	-	-	-	-	-		Ciclev10004481m	scaffold_9	7232959	7238380
Tf0454		AAvailable marker	O	-	-	-	O	O		Ciclev10027306m	scaffold_7	16108723	16113463	C_unshiu_00371:mRNA_10.1	C_unshiu_00371	121418	127245	GATA transcription factor	AGI-02	21.099
Af0012			-	-	-	-	-	-		Ciclev10006108m	scaffold_9	2458793	2459573
Af1267			-	-	-	-	-	-		Ciclev10023047m	scaffold_3	1465301	1468225
Af1532			-	-	-	-	-	-		Ciclev10026374m	scaffold_7	3988366	3989679
Al0227			-	-	-	-	-	-		Ciclev10001654m	scaffold_5	42217935	42222257
Bf0204			-	-	-	-	-	-	SI326	Ciclev10025089m	scaffold_7	3222483	3228894	C_unshiu_00084:mRNA_14.1	C_unshiu_00084	139704	145312	Zeaxanthin epoxidase, chloroplastic									RP-02.2	9.835
Cp1143		MDisagree by Marco analysis	O	-	-	-	-	-		Ciclev10000651m	scaffold_5	39858531	39862402	C_unshiu_00096:mRNA_9.1	C_unshiu_00096	70713	73505	Phosphoglycerate dehydrogenase	AGI-09	42.158
Fb0722			-	-	-	-	-	-		Ciclev10008390m	scaffold_1	16098039	16100795
Lp0036			-	-	-	-	-	-		Ciclev10012725m	scaffold_6	12998055	13001834
Ov0312			-	-	-	-	-	-		Ciclev10018858m	scaffold_3	1344192	1349935	C_unshiu_00541:mRNA_19.1	C_unshiu_00541	170170	175878	Spastin									SA-09	8.022
Tf0181			-	-	-	-	-	-		Ciclev10011164m	scaffold_6	14694513	14700102
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
Af0013			-	-	-	-	-	-		Ciclev10023060m	scaffold_3	13416061	13417219
Af1268			-	-	-	-	-	-		Ciclev10011546m	scaffold_6	22523213	22529556
Af1533			-	-	-	-	-	-		Ciclev10009600m	scaffold_1	22118203	22120791
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
Bf0205			O	-	-	-	-	-	SI236	Ciclev10025925m	scaffold_7	3541924	3543863	C_unshiu_00301:mRNA_11.1	C_unshiu_00301	55570	57462	WRKY
Cp1144		OOthers	-	-	-	-	-	-		Ciclev10028086m	scaffold_8	2649991	2655756	C_unshiu_00152:mRNA_43.1	C_unshiu_00152	288550	294174	Sodium:hydrogen antiporter 1 isoform 1	AGI-08	70.995
Fb0827			O	-	-	-	-	-	SI215,SI301	Ciclev10004432m	scaffold_9	2353442	2357780	C_unshiu_00394:mRNA_9.1	C_unshiu_00394	41719	45690	Chloroplast 1-deoxy-D-xylulose-5-phosphate synthase	AGI-03	19.017	KmG-031	16.544	JtR-034
Lp0037		OOthers	-	-	-	-	-	-		Ciclev10025045m	scaffold_7	18963487	18968140
Ov0313		OOthers	-	-	-	-	-	-		Ciclev10002372m	scaffold_5	41844984	41847835	C_unshiu_00009:mRNA_157.1	C_unshiu_00009	1013478	1016014	Diphthine synthase			KmG-09	79.072
Tf0183			-	-	-	-	-	-		Ciclev10021488m	scaffold_3	30873886	30877367
Tf0456			-	-	-	-	-	-		Ciclev10020156m	scaffold_3	44858333	44862278
Af0014			-	-	-	-	-	-		Ciclev10023139m	scaffold_3	253879	254627
Af1269			-	-	-	-	-	-		Ciclev10009375m	scaffold_1	27043124	27045483
Af1534			-	-	-	-	-	-		Ciclev10006429m	scaffold_9	883603	885249
Al0229			-	-	-	-	-	-		Ciclev10018463m	scaffold_3	49675354	49684423
Bf0207			-	-	-	-	-	-		Ciclev10014190m	scaffold_2	22005783	22011411
Cp1162		AAvailable marker	-	-	-	-	O	O		Ciclev10001345m	scaffold_5	35908181	35912917	C_unshiu_00255:mRNA_35.1	C_unshiu_00255	260170	264872	Phosphoribosylaminoimidazolesuccinocarboxamide synthase	AGI-09	53.232							RP-09	69.673
Fb0995		OOthers	O	-	-	-	-	-	SI026	Ciclev10024677m	scaffold_7	1180019	1202408	C_unshiu_00544:mRNA_10.1	C_unshiu_00544	97318	121662	FAT domain-containing protein	AGI-02	74.555	KmG-02	82.954	JtR-02	10.215
Lp0038			-	-	-	-	-	-		Ciclev10029808m	scaffold_8	6686602	6688894
Ov0314		AAvailable marker	O	-	-	-	O	O	SI107	Ciclev10029386m	scaffold_8	8176371	8177435	C_unshiu_00728:mRNA_1.1	C_unshiu_00728	4070	4922	Mannan polymerase complex subunit mnn9	AGI-08	56.724	KmG-08	58.356	JtR-08	21.829			RP-08	41.217
Tf0184		AAvailable marker	O	-	-	-	O	O		Ciclev10019968m	scaffold_3	45393857	45398298	C_unshiu_00546:mRNA_8.1	C_unshiu_00546	75023	78260	Zinc finger CCCH domain-containing protein 3	AGI-05	57.948
Vs0001			-	-	-	-	-	-
Af0015			-	-	-	-	-	-		Ciclev10019449m	scaffold_3	44021779	44027536	C_unshiu_00217:mRNA_10.1	C_unshiu_00217	86393	91294	Hypothetical protein	AGI-05	54.268
Af1270			-	-	-	-	-	-		Ciclev10011405m	scaffold_6	17589895	17593051
Af1535			-	-	-	-	-	-		Ciclev10007633m	scaffold_1	23814115	23817728
Al0230			-	-	-	-	-	-
Bf0212			-	-	-	-	-	-	SI332	Ciclev10016442m	scaffold_2	9206686	9211152	C_unshiu_00004:mRNA_52.2	C_unshiu_00004	401860	406444	Carbonate dehydratase	AGI-06	117.593
Cp1163			-	-	-	-	-	-		Ciclev10025825m	scaffold_7	16201971	16207283
Fb1121	Fb1121.lg		-	-	-	-	-	-		Ciclev10014991m	scaffold_2	22635764	22640239
Lp0039			-	-	-	-	-	-		Ciclev10004396m	scaffold_9	22309970	22314448
Ov0315		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10013467m	scaffold_6	23430375	23436161	C_unshiu_00098:mRNA_32.2	C_unshiu_00098	207615	213748	Putative nuclear matrix constituent protein 1-like protein			KmG-04	7.092
Tf0185			O	-	-	-	-	-		Ciclev10014198m	scaffold_2	31740431	31747095
Vs0002		MDisagree by Marco analysis	-	-	-	-	-	-	SI103,SI115	Ciclev10000046m	scaffold_5	41184180	41190033	C_unshiu_00127:mRNA_46.1	C_unshiu_00127	341430	344325	Hypothetical protein	AGI-09	36.685	KmG-09	73.930	JtR-07	68.221
Af0016			-	-	-	-	-	-		Ciclev10022861m	scaffold_3	25074163	25075916	C_unshiu_00117:mRNA_7.1	C_unshiu_00117	38949	40765	Hypothetical protein	AGI-05	41.306
Af1271			-	-	-	-	-	-		Ciclev10025653m	scaffold_7	13323583	13328683
Af1536			-	-	-	-	-	-		Ciclev10021945m	scaffold_3	6113049	6116055
Al0231			-	-	-	-	-	-		Ciclev10033829m	scaffold_4	16223771	16226683	C_unshiu_00086:mRNA_13.1	C_unshiu_00086	99963	109609	Shatterproof									RP-06.1	7.272
Bf0213			-	-	-	-	-	-	SI097	Ciclev10000820m	scaffold_5	37693882	37699178	C_unshiu_00238:mRNA_2.1	C_unshiu_00238	14475	19398	DnaJ domain protein									RP-09	77.126
Cp1177			-	-	-	-	-	-		Ciclev10006006m	scaffold_9	4116356	4117315
Fb1134.2			-	-	-	-	-	-		Ciclev10030474m	scaffold_4	9547707	9559498	C_unshiu_00140:mRNA_14.1	C_unshiu_00140	164689	176715	DNA N-glycosylase/DNA-(Apurinic or apyrimidinic site) lyase, putative isoform 5	AGI-07	38.546
Lp0040		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10026107m	scaffold_7	3674156	3676384	C_unshiu_00169:mRNA_34.1	C_unshiu_00169	261779	263315	Transcription factor			KmG-02	52.181	JtR-02	25.334
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
Tf0186			-	-	-	-	-	-		Ciclev10024602m	scaffold_3	5382490	5385009
Vs0003		AAvailable marker	-	-	-	-	O	O	SI077					C_unshiu_00009:mRNA_117.1	C_unshiu_00009	675718	677501	Cysteine proteinase RD19a	AGI-09	35.312	KmG-09	72.447			NAT-09	93.467
Af0017			-	-	-	-	-	-		Ciclev10029358m	scaffold_8	313112	317158
Af1272			-	-	-	-	-	-		Ciclev10019689m	scaffold_3	24796351	24800588
Af1537			-	-	-	-	-	-		Ciclev10009797m	scaffold_1	8417158	8419377
Al0232			-	-	-	-	-	-		Ciclev10026186m	scaffold_7	4997089	4999255
Bf0215			-	-	-	-	-	-		Ciclev10022088m	scaffold_3	50793520	50795340
Cp1184			-	-	-	-	-	-		Ciclev10005685m	scaffold_9	17809957	17817998
Fb1170			-	-	-	-	-	-		Ciclev10014845m	scaffold_2	23829862	23832918
Lp0041		AAvailable marker	-	-	-	-	-	O		Ciclev10006136m	scaffold_9	6354796	6356630	C_unshiu_00146:mRNA_22.1	C_unshiu_00146	205279	207014	50S ribosomal protein L28			KmG-032	17.549	JtR-031	14.643			RP-03	29.608
Ov0317	Ov0316.2		-	-	-	-	-	-		Ciclev10020995m	scaffold_3	3963024	3966516
Tf0187			-	-	-	-	-	-		Ciclev10013228m	scaffold_6	1950121	1950908
Vs0004			-	-	-	-	-	-		Ciclev10021761m	scaffold_3	2078691	2083111	C_unshiu_00490:mRNA_23.1	C_unshiu_00490	182148	190847	Nucleosome assembly protein			KmG-06	51.244
Af0018			-	-	-	-	-	-		Ciclev10000947m	scaffold_5	40691801	40694522
Af1273			-	-	-	-	-	-		Ciclev10024624m	scaffold_3	12214029	12215007
Af1538			-	-	-	-	-	-		Ciclev10002528m	scaffold_5	33921984	33926087
Al0234		OOthers	-	-	-	-	-	-		Ciclev10005909m	scaffold_9	1372972	1374927	C_unshiu_00369:mRNA_20.1	C_unshiu_00369	74034	74546	Ribosomal protein L19			KmG-031	6.974			NAT-03	47.094	RP-03	3.219
Bf0216			-	-	-	-	-	-		Ciclev10031058m	scaffold_4	15058920	15066775
Cp1196			-	-	-	-	-	-		Ciclev10031889m	scaffold_4	19626061	19629792
Fb1227			-	-	-	-	-	-		Ciclev10004375m	scaffold_9	3367718	3376062	C_unshiu_00051:mRNA_60.1	C_unshiu_00051	463042	471084	Chloride channel protein	AGI-03	19.631
Lp0042			-	-	-	-	-	-		Ciclev10028234m	scaffold_8	21342050	21345004
Ov0318		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10012779m	scaffold_6	19405285	19407278	C_unshiu_00273:mRNA_20.1	C_unshiu_00273	103250	105183	40S ribosomal protein S5
Tf0188			-	-	-	-	-	-		Ciclev10012285m	scaffold_6	15774976	15777653
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
Af1003			O	-	-	-	-	-		Ciclev10001093m	scaffold_5	15605852	15610028	C_unshiu_00533:mRNA_20.1	C_unshiu_00533	131430	141111	Glutamyl-tRNA(Gln) amidotransferase subunit A, chloroplastic/mitochondrial	AGI-02	22.436
Af1274			-	-	-	-	-	-		Ciclev10009370m	scaffold_1	3152548	3153983
Af1539			-	-	-	-	-	-		Ciclev10016688m	scaffold_2	10097308	10100347
Al0235			-	-	-	-	-	-		Ciclev10009395m	scaffold_1	25761570	25764926
Bf0218			O	-	-	-	-	-	SI232	Ciclev10000452m	scaffold_5	36036990	36048487	C_unshiu_00406:mRNA_20.1	C_unshiu_00406	134274	145322	Isoamylase	AGI-09	53.205	KmG-09	37.847					RP-09	70.349
Cp1200		MDisagree by Marco analysis	O	-	-	-	-	-						C_unshiu_00810:mRNA_8.1	C_unshiu_00810	99220	102123	Myrcene synthase, chloroplastic	AGI-08	38.604
Fb1430	Fb1430.lg		O	-	-	-	-	-		Ciclev10005994m	scaffold_9	1879675	1880523	C_unshiu_00102:mRNA_3.1	C_unshiu_00102	16507	17334	60S ribosome subunit biogenesis protein NIP7 homolog	AGI-03
Lp0043		OOthers	-	-	-	-	-	-		Ciclev10015870m	scaffold_2	35334245	35336841
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
Tf0189			-	-	-	-	-	-		Ciclev10001738m	scaffold_5	21379384	21385293
Vs0006		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10025343m	scaffold_7	19024295	19026021	C_unshiu_00468:mRNA_22.1	C_unshiu_00468	132124	133922	Cytochrome P450 78A4	AGI-02	27.491			JtR-02	50.216	NAT-02S	3.328
Af1004			-	-	-	-	-	-		Ciclev10008926m	scaffold_1	24426760	24434342
Af1275			-	-	-	-	-	-		Ciclev10028274m	scaffold_8	13035174	13037307
Af1540			-	-	-	-	-	-		Ciclev10006242m	scaffold_9	477388	478920
Al0236			-	-	-	-	-	-		Ciclev10014723m	scaffold_2	32806565	32812384
Bf0219			-	-	-	-	-	-		Ciclev10029243m	scaffold_8	24851462	24854925
Cp1201			-	-	-	-	-	-		Ciclev10031397m	scaffold_4	19416844	19420948
Fb1505			-	-	-	-	-	-
Lp0044			-	-	-	-	-	-		Ciclev10032981m	scaffold_4	23618424	23622719
Ov0320			-	-	-	-	-	-		Ciclev10005968m	scaffold_9	27640074	27641178	C_unshiu_00252:mRNA_13.1	C_unshiu_00252	89281	90198	21 kDa protein									RP-03	56.919
Tf0191			-	-	-	-	-	-		Ciclev10015847m	scaffold_2	5821401	5825173
Vs0007			-	-	-	-	-	-		Ciclev10025931m	scaffold_7	1207141	1210820
Af1005			-	-	-	-	-	-		Ciclev10012491m	scaffold_6	20715590	20719704
Af1276			-	-	-	-	-	-		Ciclev10022100m	scaffold_3	7080222	7081373
Af1541			-	-	-	-	-	-		Ciclev10031567m	scaffold_4	10510018	10517939
Al0237			-	-	-	-	-	-		Ciclev10026739m	scaffold_7	5523075	5524475
Bf0221			-	-	-	-	-	-		Ciclev10005970m	scaffold_9	24195180	24198282	C_unshiu_00132:mRNA_22.1	C_unshiu_00132	211597	223530	Hypothetical protein	AGI-03	47.887							RP-03	37.193
Cp1213			-	-	-	-	-	-		Ciclev10015476m	scaffold_2	11598999	11601307
Fb1567			-	-	-	-	-	-		Ciclev10022690m	scaffold_3	50637673	50640392	No					AGI-05	103.212
Lp0045			-	-	-	-	-	-
Ov0321			-	-	-	-	-	-		Ciclev10018918m	scaffold_3	42776479	42784038
Tf0193			-	-	-	-	-	-		Ciclev10007849m	scaffold_1	27167271	27171073
Vs0008			-	-	-	-	-	-		Ciclev10032306m	scaffold_4	947943	949892
Af1006			-	-	-	-	-	-		Ciclev10005512m	scaffold_9	24661109	24664797
Af1277			-	-	-	-	-	-		Ciclev10030804m	scaffold_4	23811511	23814763
Af1542			-	-	-	-	-	-		Ciclev10015820m	scaffold_2	10424779	10427904
Al0238			-	-	-	-	-	-		Ciclev10017077m	scaffold_2	8494369	8496454
Bf0224			-	-	-	-	-	-		Ciclev10012183m	scaffold_6	22244924	22252231
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
Fb1611			-	-	-	-	-	-	SI071	Ciclev10014570m	scaffold_2	27030188	27034752	No
Lp0046			-	-	-	-	-	-		Ciclev10012884m	scaffold_6	24274031	24276658
Ov0322		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10003485m	scaffold_5	36398988	36399239	C_unshiu_00241:mRNA_9.1	C_unshiu_00241	39546	40639	Microsomal signal peptidase 12 kDa protein	AGI-09	50.810	KmG-09	42.179	JtR-09S	62.873			RP-09	70.369
Tf0194			-	-	-	-	-	-		Ciclev10018639m	scaffold_3	42996886	43001548
Vs0009			-	-	-	-	-	-
Af1007			-	-	-	-	-	-		Ciclev10021398m	scaffold_3	12814731	12817148
Af1278			-	-	-	-	-	-		Ciclev10009508m	scaffold_1	6903804	6908960
Af1543			-	-	-	-	-	-		Ciclev10022165m	scaffold_3	42180650	42183843
Al0239		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10026364m	scaffold_7	16185818	16187223	C_unshiu_00371:mRNA_7.1	C_unshiu_00371	54653	56423	B-box type zinc finger protein, putative
Bf0225			-	-	-	-	-	-		Ciclev10016071m	scaffold_2	3460370	3462174
Cp1221			-	-	-	-	-	-		Ciclev10016867m	scaffold_2	13627656	13629444
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
Lp0047			-	-	-	-	-	-
Ov0323			-	-	-	-	-	-		Ciclev10005490m	scaffold_9	5549195	5553148
Tf0195		MDisagree by Marco analysis	O	-	-	-	-	-		Ciclev10030351m	scaffold_8	67997	74191	C_unshiu_01137:mRNA_4.1	C_unshiu_01137	30837	36569	AT-rich interactive domain-containing protein 3	AGI-08	87.683
Vs0010			-	-	-	-	-	-		Ciclev10012145m	scaffold_6	21035910	21038368
Af1008			-	-	-	-	-	-		Ciclev10006973m	scaffold_9	2470085	2471703
Af1279			-	-	-	-	-	-		Ciclev10031302m	scaffold_4	14510787	14516311
Af1544			-	-	-	-	-	-		Ciclev10026596m	scaffold_7	2622969	2624754
Al0240		AAvailable marker	-	-	-	-	O	O		Ciclev10028497m	scaffold_8	8033465	8038415	C_unshiu_00682:mRNA_9.1	C_unshiu_00682	59786	63447	Hypothetical protein	AGI-08	53.867
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
Cp1223			-	-	-	-	-	-		Ciclev10019033m	scaffold_3	50559205	50563745
Fb1685			-	-	-	-	-	-		Ciclev10015934m	scaffold_2	35693249	35696515
Lp0048			-	-	-	-	-	-		Ciclev10022383m	scaffold_3	46374292	46377587
Ov0324		AAvailable marker	-	-	-	-	-	O		Ciclev10030198m	scaffold_8	22575845	22578398	C_unshiu_01619:mRNA_6.1	C_unshiu_01619	15139	24519	Hypothetical protein			KmG-08	23.615
Tf0196			-	-	-	-	-	-		Ciclev10025815m	scaffold_7	7796591	7799786	C_unshiu_01633:mRNA_1.1	C_unshiu_01633	9442	11959	Hypothetical protein	AGI-02	4.033
Vs0011			-	-	-	-	-	-		Ciclev10012145m	scaffold_6	21035910	21038368
Af1009			-	-	-	-	-	-		Ciclev10015365m	scaffold_2	35818327	35822366
Af1281			-	-	-	-	-	-		Ciclev10029683m	scaffold_8	20366637	20367616
Af1545			-	-	-	-	-	-		Ciclev10032524m	scaffold_4	2153718	2155194
Al0241			-	-	-	-	-	-		Ciclev10012288m	scaffold_6	17857849	17860063
Bf0229			-	-	-	-	-	-	SI253	Ciclev10004848m	scaffold_9	17242218	17245901	C_unshiu_00122:mRNA_16.1	C_unshiu_00122	118693	122329	Selenium binding protein	AGI-03	46.274							RP-03	37.885
Cp1224			-	-	-	-	-	-		Ciclev10016280m	scaffold_2	23891814	23893095
Fb1751			-	-	-	-	-	-	SI264	Ciclev10025011m	scaffold_7	7977527	7984425	C_unshiu_00121:mRNA_40.1	C_unshiu_00121	250743	257054	Protein STRUBBELIG-RECEPTOR FAMILY 8
Lp0049	Lp0049.k		-	-	-	-	-	-		Ciclev10021491m	scaffold_3	50736750	50739959
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
Tf0197			-	-	-	-	-	-		Ciclev10012447m	scaffold_6	14804828	14808139
Vs0012		Bno homozygous cultivar with minor allele	-	-	-	-	-	-
Af1010			-	-	-	-	-	-		Ciclev10014106m	scaffold_2	31656510	31666206
Af1282			-	-	-	-	-	-
Af1546			-	-	-	-	-	-		Ciclev10016821m	scaffold_2	12406078	12408794
Al0242			-	-	-	-	-	-		Ciclev10032030m	scaffold_4	3437577	3441367
Bf0232			-	-	-	-	-	-		Ciclev10031191m	scaffold_4	21861774	21865635	C_unshiu_01346:mRNA_3.1	C_unshiu_01346	18206	22054	T-complex protein 1 subunit delta	AGI-07	67.250							RP-07	6.705
Cp1225			-	-	-	-	-	-		Ciclev10025660m	scaffold_7	17208075	17211871
Fb1784			-	-	-	-	-	-		Ciclev10028959m	scaffold_8	445469	446936	C_unshiu_02466:mRNA_2.1	C_unshiu_02466	2597	4055	Class I chitinase									RP-05	52.311
Lp0101			-	-	-	-	-	-		Ciclev10002394m	scaffold_5	15991108	15996585
Ov0326			-	-	-	-	-	-		Ciclev10001212m	scaffold_5	21522433	21525218
Tf0198		AAvailable marker	O	-	-	-	-	O		Ciclev10032275m	scaffold_4	23695766	23697703	C_unshiu_00001:mRNA_105.2	C_unshiu_00001	685451	687250	Homeobox-leucine zipper protein HAT7
Vs0013			-	-	-	-	-	-
Af1011			O	-	-	-	-	-		Ciclev10013781m	scaffold_6	25306829	25315243	C_unshiu_00009:mRNA_53.1	C_unshiu_00009	289462	299397	Hypothetical protein									RP-04	60.491
Af1283			-	-	-	-	-	-		Ciclev10016366m	scaffold_2	29757723	29762309
Af1547			-	-	-	-	-	-		Ciclev10005907m	scaffold_9	3864764	3867933
Al0243			-	-	-	-	-	-		Ciclev10013041m	scaffold_6	20092033	20095946
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
Cp1252			-	-	-	-	-	-		Ciclev10000164m	scaffold_5	30617746	30629437
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
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
Ov0401		MDisagree by Marco analysis	O	-	-	-	-	-		Ciclev10004762m	scaffold_9	28736008	28740315	No							KmG-08	58.635					SA-06
Tf0199			-	-	-	-	-	-	SI023,SI157	Ciclev10000697m	scaffold_5	30994812	30999834	C_unshiu_00422:mRNA_12.1	C_unshiu_00422	116754	121159	Serine/threonine-protein kinase isoform 2
Vs0014		Bno homozygous cultivar with minor allele	-	-	-	-	-	-						C_unshiu_00375:mRNA_10.1	C_unshiu_00375	50515	51680	Metallothionein
Af1012			-	-	-	-	-	-		Ciclev10026672m	scaffold_7	16270394	16272027
Af1285			-	-	-	-	-	-		Ciclev10010796m	scaffold_1	12807597	12808725
Af1548			-	-	-	-	-	-		Ciclev10012731m	scaffold_6	25114213	25116604
Al0244			-	-	-	-	-	-		Ciclev10015497m	scaffold_2	9849133	9852098
Bf0401			-	-	-	-	-	-		Ciclev10019609m	scaffold_3	37906090	37910975
Cp1254			-	-	-	-	-	-		Ciclev10028147m	scaffold_8	21112804	21117215
Fb2130			-	-	-	-	-	-	SI069,SI117	Ciclev10030030m	scaffold_8	24341129	24344795	C_unshiu_00021:mRNA_68.1	C_unshiu_00021	452003	461315	Hypothetical protein	AGI-08	11.809	KmG-08	11.813
Lp0103		OOthers	-	-	-	-	-	-		Ciclev10012274m	scaffold_6	16393309	16395378	C_unshiu_00332:mRNA_15.1	C_unshiu_00332	142648	144673	Pyridoxal biosynthesis lyase pdxS									RP-04	11.437
Ov0402			-	-	-	-	-	-		Ciclev10011849m	scaffold_6	9847502	9854667
Tf0200			O	-	-	-	-	-		Ciclev10030297m	scaffold_8	21095569	21102194
Vs0015		OOthers	-	-	-	-	-	-						C_unshiu_00001:mRNA_84.1	C_unshiu_00001	561308	564986	Mitochondrial outer membrane protein porin of 34 kDa	AGI-09	115.452	KmG-09	34.185	JtR-09S	15.823
Af1013			-	-	-	-	-	-		Ciclev10022053m	scaffold_3	48621909	48624876
Af1286			-	-	-	-	-	-
Af1549			-	-	-	-	-	-		Ciclev10009920m	scaffold_1	2184513	2186967
Al0245			-	-	-	-	-	-		Ciclev10005107m	scaffold_9	25185200	25188839
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
Cp1257			-	-	-	-	-	-		Ciclev10014209m	scaffold_2	5582927	5587253
Fb2156	Fb2156.lg		O	-	-	-	-	-		Ciclev10000537m	scaffold_5	39992234	39996269	C_unshiu_00096:mRNA_31.1	C_unshiu_00096	198494	202358	Poly(A) binding protein 6, putative isoform 1	AGI-09	41.254
Lp0104			-	-	-	-	-	-		Ciclev10017466m	scaffold_2	27579627	27581411
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
Tf0201			O	-	-	-	-	-	SI195	Ciclev10025985m	scaffold_7	15182950	15186486	C_unshiu_01526:mRNA_4.1	C_unshiu_01526	17982	21291	Ethylene-responsive transcription factor WRI1
Vs0016		Bno homozygous cultivar with minor allele	-	-	-	-	-	-						C_unshiu_02110:mRNA_3.2	C_unshiu_02110	27660	28723	Metallothionein	AGI-05	25.980	KmG-08	17.483	JtR-08
Af1014			-	-	-	-	-	-		Ciclev10018683m	scaffold_3	43594638	43605172
Af1287			-	-	-	-	-	-		Ciclev10022137m	scaffold_3	39601128	39604586
Af1551			-	-	-	-	-	-		Ciclev10008489m	scaffold_1	6494973	6502196
Al0246			-	-	-	-	-	-		Ciclev10019351m	scaffold_3	44215333	44220917
Bf0403			-	-	-	-	-	-
Cp1267		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10011346m	scaffold_6	7983788	7991526	C_unshiu_02325:mRNA_1.1	C_unshiu_02325	1642	9359	Riboflavin biosynthesis protein RibD	AGI-08	94.382
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
Lp0105		Bno homozygous cultivar with minor allele	O	-	-	-	-	-	SI113,SI163,SI254	Ciclev10026412m	scaffold_7	815904	817239	C_unshiu_00353:mRNA_13.1	C_unshiu_00353	92033	93437	Hypothetical protein	AGI-02	75.939
Ov0404		AAvailable marker	-	-	-	-	-	O		Ciclev10002415m	scaffold_5	29768091	29769281	C_unshiu_00731:mRNA_6.3	C_unshiu_00731	26598	28767	Hydroxycinnamoyl-CoA shikimate/quinate hydroxycinnamoyl transferase			KmG-09	29.016	JtR-09S	31.495			RP-09	29.347
Tf0202			-	-	-	-	-	-		Ciclev10032893m	scaffold_4	3636667	3641089
Vs0017			-	-	-	-	-	-		Ciclev10009470m	scaffold_1	6647158	6649599
Af1016			-	-	-	-	-	-		Ciclev10025840m	scaffold_7	2394471	2397293
Af1288			-	-	-	-	-	-		Ciclev10016357m	scaffold_2	35803512	35805985
Af1552			-	-	-	-	-	-		Ciclev10005340m	scaffold_9	30527060	30531535
Al0247		T3 or more alleleic model	O	-	-	-	-	-		Ciclev10029281m	scaffold_8	2227827	2230752	C_unshiu_00024:mRNA_15.1	C_unshiu_00024	104182	106823	Somatic embryogenesis receptor kinase 1	AGI-08	77.316	KmG-08	91.101			NAT-082	73.850
Bf0404			-	-	-	-	-	-
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
Gmom01			-	-	-	-	-	-		Ciclev10000531m	scaffold_5	33273053	33276013
Lp0106			-	-	-	-	-	-		Ciclev10030683m	scaffold_4	22868978	22880751
Ov0405			-	-	-	-	-	-		Ciclev10011509m	scaffold_6	18406856	18412391
Tf0203			-	-	-	-	-	-	SI121	Ciclev10014039m	scaffold_2	10459593	10472483	C_unshiu_00403:mRNA_13.1	C_unshiu_00403	88988	102135	Homeodomain transcriptional regulator
Vs0018			-	-	-	-	-	-		Ciclev10026149m	scaffold_7	4612887	4617115
Af1017			O	-	-	-	-	-		Ciclev10006402m	scaffold_9	22671554	22672639	No					AGI-03	46.274
Af1289			-	-	-	-	-	-		Ciclev10001940m	scaffold_5	4289876	4293681
Af1553			-	-	-	-	-	-		Ciclev10023028m	scaffold_3	45812589	45815067
Al0248			-	-	-	-	-	-		Ciclev10028483m	scaffold_8	19779795	19784134
Bf0405			-	-	-	-	-	-		Ciclev10024721m	scaffold_7	2994525	3001770
Cp1278			-	-	-	-	-	-		Ciclev10030907m	scaffold_4	12263755	12266130
Gmom02			-	-	-	-	-	-		Ciclev10015097m	scaffold_2	4367068	4371625
Lp0107			-	-	-	-	-	-		Ciclev10030913m	scaffold_4	21916592	21922770
Ov0406			-	-	-	-	-	-		Ciclev10025329m	scaffold_7	5159995	5165972
Tf0204			-	-	-	-	-	-		Ciclev10027848m	scaffold_8	23589702	23593390
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
Af1019			-	-	-	-	-	-		Ciclev10005635m	scaffold_9	192512	196670
Af1290			-	-	-	-	-	-		Ciclev10029472m	scaffold_8	24413157	24415621
Af1554			-	-	-	-	-	-		Ciclev10009386m	scaffold_1	23753759	23756754	C_unshiu_00080:mRNA_59.1	C_unshiu_00080	491826	492778	Protein CWC15	AGI-01	28.775
Al0249			-	-	-	-	-	-		Ciclev10004782m	scaffold_9	30490331	30496586
Bf0406			-	-	-	-	-	-		Ciclev10026290m	scaffold_7	15773091	15776242
Cp1279		AAvailable marker	-	-	-	-	O	O		Ciclev10031414m	scaffold_4	12900777	12903692	C_unshiu_00461:mRNA_17.1	C_unshiu_00461	144878	147555	Ornithine aminotransferase	AGI-07	40.184
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
Lp0108		AAvailable marker	-	-	-	-	-	O		Ciclev10026340m	scaffold_7	5554619	5556993	C_unshiu_00761:mRNA_5.1	C_unshiu_00761	18704	21072	40S ribosomal protein S6			KmG-02	41.508	JtR-02	18.351
Ov0407		AAvailable marker	-	-	-	-	O	O		Ciclev10000563m	scaffold_5	37043417	37051080	C_unshiu_00773:mRNA_1.1	C_unshiu_00773	7888	15416	OSBP(Oxysterol binding protein)-related protein 1C isoform 3	AGI-09	46.097	KmG-09	48.606	JtR-09S	66.176			RP-09	76.027
Tf0205		OOthers	O	-	-	-	-	-	SI274	Ciclev10005062m	scaffold_9	16383851	16393557	C_unshiu_00094:mRNA_29.1	C_unshiu_00094	262934	272307	UBX domain-containing protein 1	AGI-03	46.274
Vt0002			-	-	-	-	-	-		Ciclev10032270m	scaffold_4	20868750	20872170
Af1021			-	-	-	-	-	-		Ciclev10022113m	scaffold_3	40664635	40665640
Af1291			-	-	-	-	-	-		Ciclev10026757m	scaffold_7	4779400	4780310
Af1555			-	-	-	-	-	-		Ciclev10029189m	scaffold_8	24502070	24504031
Al0250			-	-	-	-	-	-		Ciclev10031445m	scaffold_4	24770754	24773948
Bf0407			-	-	-	-	-	-		Ciclev10011592m	scaffold_6	10729034	10731466
Cp1283			-	-	-	-	-	-		Ciclev10001817m	scaffold_5	34891100	34894176
Gmom04			-	-	-	-	-	-		Ciclev10019228m	scaffold_3	47476188	47479361	C_unshiu_00023:mRNA_74.1	C_unshiu_00023	480170	486801	Protein LHY	AGI-05	73.504
Lp0109		OOthers	O	-	-	-	-	-		Ciclev10020902m	scaffold_3	17561127	17562695
Ov0408		AAvailable marker	-	-	-	-	-	O		Ciclev10011522m	scaffold_6	18491789	18493623	C_unshiu_00248:mRNA_30.1	C_unshiu_00248	247183	248778	UDP-glycosyltransferase 71C4			KmG-04	50.902					RP-04	23.745
Tf0206			-	-	-	-	-	-		Ciclev10005479m	scaffold_9	23161294	23166939
Vt0003			-	-	-	-	-	-		Ciclev10027667m	scaffold_8	8153660	8174407	C_unshiu_00616:mRNA_3.1	C_unshiu_00616	10808	18470	Hypothetical protein	AGI-08	56.724
Af1022			-	-	-	-	-	-		Ciclev10022479m	scaffold_3	8486491	8488997
Af1292			-	-	-	-	-	-		Ciclev10026736m	scaffold_7	6677314	6680214
Af1556			-	-	-	-	-	-		Ciclev10026643m	scaffold_7	11107041	11109191	C_unshiu_01501:mRNA_6.1	C_unshiu_01501	57291	59154	Lactoylglutathione lyase/glyoxalase I family protein	AGI-02	11.728
Al0251			-	-	-	-	-	-		Ciclev10021340m	scaffold_3	6695171	6697430
Bf0408			-	-	-	-	-	-		Ciclev10024877m	scaffold_7	4843157	4848614
Cp1292			-	-	-	-	-	-		Ciclev10025390m	scaffold_7	2246732	2249558
Gmom05			-	-	-	-	-	-		Ciclev10024623m	scaffold_3	33722934	33727855
Lp0110			-	-	-	-	-	-		Ciclev10009769m	scaffold_1	24271753	24272644
Ov0409			-	-	-	-	-	-		Ciclev10022219m	scaffold_3	4736047	4740432
Tf0207			-	-	-	-	-	-		Ciclev10014026m	scaffold_2	9008920	9021876
Vt0004			-	-	-	-	-	-		Ciclev10005408m	scaffold_9	9805899	9809222
Af1023			-	-	-	-	-	-		Ciclev10028042m	scaffold_8	2719654	2725331
Af1293			-	-	-	-	-	-		Ciclev10014998m	scaffold_2	16597796	16602257
Af1558			-	-	-	-	-	-		Ciclev10005504m	scaffold_9	29608462	29612474
Al0252			-	-	-	-	-	-		Ciclev10028251m	scaffold_8	24689989	24692884
Bf0409			-	-	-	-	-	-						C_unshiu_00616:mRNA_6.1	C_unshiu_00616	72171	79153	Disease resistance protein (CC-NBS-LRR class) family protein	AGI-08	57.386
Cp1302			-	-	-	-	-	-		Ciclev10031853m	scaffold_4	7407834	7414015
Gmom06			-	-	-	-	-	-		Ciclev10012088m	scaffold_6	2067586	2073007
Lp0111			-	-	-	-	-	-		Ciclev10022339m	scaffold_3	36096009	36099799
Ov0410			-	-	-	-	-	-		Ciclev10001911m	scaffold_5	41005054	41009065
Tf0208			-	-	-	-	-	-	SI181	Ciclev10012022m	scaffold_6	23593516	23595492	C_unshiu_00098:mRNA_56.1	C_unshiu_00098	370300	372260	COL1 protein
Vt0005			-	-	-	-	-	-		Ciclev10001888m	scaffold_5	36449346	36452178
Af1024			-	-	-	-	-	-		Ciclev10016735m	scaffold_2	35841859	35844177
Af1294			-	-	-	-	-	-		Ciclev10018252m	scaffold_2	27774863	27778271
Af1559			-	-	-	-	-	-		Ciclev10005333m	scaffold_9	2211862	2215512
Al0256			-	-	-	-	-	-		Ciclev10028637m	scaffold_8	19538138	19541255
Bf0410			-	-	-	-	-	-		Ciclev10003680m	scaffold_5	32917826	32924241
Cp1308		AAvailable marker	-	O	-	-	O	O		Ciclev10011420m	scaffold_6	6329421	6335005	C_unshiu_00147:mRNA_29.1	C_unshiu_00147	247701	253232	Unspecific monooxygenase	AGI-04	101.201
Gmom07			-	-	-	-	-	-		Ciclev10021492m	scaffold_3	7248627	7253007
Lp0112		AAvailable marker	O	-	-	-	-	-		Ciclev10032923m	scaffold_4	3749809	3751724	C_unshiu_00236:mRNA_28.1	C_unshiu_00236	161422	163318	ATP synthase subunit d, mitochondrial	AGI-07	19.603							RP-07	50.962
Ov0411			-	-	-	-	-	-		Ciclev10011259m	scaffold_6	23410636	23414246
Tf0209			-	-	-	-	-	-		Ciclev10015591m	scaffold_2	35642412	35646764
Vt0006			-	-	-	-	-	-		Ciclev10010149m	scaffold_1	24914885	24923422
Af1025			-	-	-	-	-	-		Ciclev10019927m	scaffold_3	48337105	48339028
Af1295			-	-	-	-	-	-		Ciclev10030829m	scaffold_4	3468083	3477274
Af1560			-	-	-	-	-	-
Al0257	Al0257.k		-	-	-	-	-	-		Ciclev10008444m	scaffold_1	22407412	22409529
Bf0411		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10028317m	scaffold_8	21869065	21874083	C_unshiu_00500:mRNA_13.1	C_unshiu_00500	128482	133656	Sulfotransferase
Cp1323			-	-	-	-	-	-		Ciclev10012716m	scaffold_6	17992563	17993671
Gmom08			-	-	-	-	-	-		Ciclev10008617m	scaffold_1	4143948	4146608
Lp0113			-	-	-	-	-	-		Ciclev10007510m	scaffold_1	24480591	24484723
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
Tf0210			-	-	-	-	-	-	SI183	Ciclev10004533m	scaffold_9	11993282	11999324	C_unshiu_00926:mRNA_13.1	C_unshiu_00926	108384	111875	Zinc finger protein NUTCRACKER	AGI-08	56.724
Vt0007			-	-	-	-	-	-		Ciclev10019734m	scaffold_3	49821906	49825730
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
Af1296			-	-	-	-	-	-		Ciclev10031556m	scaffold_4	19133592	19137895
Af1561			-	-	-	-	-	-		Ciclev10009643m	scaffold_1	2420324	2423040
Al0301			-	-	-	-	-	-		Ciclev10022576m	scaffold_3	45906879	45907641
Bf0412			-	-	-	-	-	-						No					AGI-08	29.534
Cp1330			-	-	-	-	-	-		Ciclev10019667m	scaffold_3	14898168	14903449
Gmom09			-	-	-	-	-	-		Ciclev10008617m	scaffold_1	4143948	4146608
Lp0114			-	-	-	-	-	-		Ciclev10008315m	scaffold_1	28623624	28626008
Ov0413			-	-	-	-	-	-		Ciclev10028322m	scaffold_8	17809428	17813065	C_unshiu_00225:mRNA_26.1	C_unshiu_00225	238952	242235	Cellular nucleic acid-binding protein like			KmG-07	34.263
Tf0211			-	-	-	-	-	-		Ciclev10008192m	scaffold_1	28607325	28610917
Vt0008			-	-	-	-	-	-		Ciclev10019736m	scaffold_3	49256390	49259083
Af1027			O	-	-	-	-	-		Ciclev10005293m	scaffold_9	2946301	2950297
Af1297			-	-	-	-	-	-		Ciclev10013207m	scaffold_6	23311867	23313814
Af1562			-	-	-	-	-	-		Ciclev10022384m	scaffold_3	548048	549062
Al0302		AAvailable marker	-	O	-	-	O	O	SI090,SI311	Ciclev10004372m	scaffold_9	25073693	25080376	C_unshiu_00119:mRNA_33.1	C_unshiu_00119	346131	352710	Putative seed imbibition protein	AGI-03	48.375	KmG-032	18.339	JtR-033		NAT-03	3.773	RP-03	36.113
Bf0413			-	-	-	-	-	-						C_unshiu_00293:mRNA_16.1	C_unshiu_00293	231743	233897	Hypothetical protein	AGI-09	86.996
Cp1334		MDisagree by Marco analysis	-	-	-	-	-	-						C_unshiu_01048:mRNA_12.1	C_unshiu_01048	87386	90179	Phosphoribosylformylglycinamidine cyclo-ligase	AGI-03	46.968
Gmom11			-	-	-	-	-	-		Ciclev10019184m	scaffold_3	680835	684433
Lp0115			-	-	-	-	-	-		Ciclev10028775m	scaffold_8	17809428	17813065
Ov0414	Ov0413.2		-	-	-	-	-	-		Ciclev10028322m	scaffold_8	17809428	17813065
Tf0212			-	-	-	-	-	-	SI196	Ciclev10030538m	scaffold_4	19816800	19825304	C_unshiu_00535:mRNA_20.1	C_unshiu_00535	166525	174142	Putative nuclear matrix constituent protein 1-like protein	AGI-07	56.586
Vt0009			-	-	-	-	-	-		Ciclev10012382m	scaffold_6	24932481	24935909	C_unshiu_00135:mRNA_6.1	C_unshiu_00135	25891	28913	Major intrinsic protein (MIP) family transporter	AGI-04	38.770	KmG-04	14.707
Af1028			O	-	-	-	-	-		Ciclev10000335m	scaffold_5	42113621	42120391
Af1298			-	-	-	-	-	-		Ciclev10005845m	scaffold_9	2037273	2040825
Af1562b			-	-	-	-	-	-		Ciclev10026749m	scaffold_7	1530713	1532413
Al0303			-	-	-	-	-	-		Ciclev10029291m	scaffold_8	24431064	24433341
Bf0414			-	-	-	-	-	-		Ciclev10014446m	scaffold_2	7719550	7723396
Cp1336			-	-	-	-	-	-		Ciclev10032697m	scaffold_4	3335945	3338632
Gmom12			-	-	-	-	-	-		Ciclev10009761m	scaffold_1	25604509	25605857
Lp0116		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10028879m	scaffold_8	19397294	19398741	C_unshiu_02034:mRNA_3.1	C_unshiu_02034	7573	8901	DUF3049 family protein					JtR-08	18.207	NAT-05	47.659
Ov0415			-	-	-	-	-	-		Ciclev10007121m	scaffold_9	2339077	2341173
Tf0213		OOthers	O	-	-	-	-	-		Ciclev10030571m	scaffold_4	18839546	18848948	C_unshiu_00039:mRNA_19.1	C_unshiu_00039	154778	176393	Enhancer OF AG-4-like protein, putative	AGI-07	48.581
Vt0010			-	-	-	-	-	-		Ciclev10020141m	scaffold_3	48560245	48562027
Af1029			-	-	-	-	-	-		Ciclev10022553m	scaffold_3	2110308	2113166
Af1299			-	-	-	-	-	-		Ciclev10017055m	scaffold_2	27638163	27639131
Af1564			-	-	-	-	-	-		Ciclev10015917m	scaffold_2	26206635	26210648
Al0304		MDisagree by Marco analysis	-	-	-	-	-	-	SI259,SI293	Ciclev10013536m	scaffold_6	22616979	22619271	C_unshiu_00038:mRNA_27.1	C_unshiu_00038	174815	175255	Nutrient reservoir, putative	AGI-04	46.361	KmG-04	16.744			NAT-04		RP-04	54.617
Bf0415			-	-	-	-	-	-						C_unshiu_00643:mRNA_7.1	C_unshiu_00643	115076	117637	BEL1-like homeodomain protein 1	AGI-08	46.736
Cp1340			-	-	-	-	-	-		Ciclev10032342m	scaffold_4	125954	131376
Gmom13			-	-	-	-	-	-		Ciclev10005787m	scaffold_9	13223034	13225922	C_unshiu_00620:mRNA_11.2	C_unshiu_00620	118042	120892	Ethylene-responsive transcription factor ERF114	AGI-08	56.724
Lp0117			-	-	-	-	-	-		Ciclev10002215m	scaffold_5	28815314	28816638
Ov0416			-	-	-	-	-	-		Ciclev10004279m	scaffold_9	24807948	24823388
Tf0214			-	-	-	-	-	-	SI020	Ciclev10020053m	scaffold_3	50133837	50139049	C_unshiu_00014:mRNA_67.1	C_unshiu_00014	458017	462942	Transcription factor UNE10
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
Af1030			-	-	-	-	-	-		Ciclev10026876m	scaffold_7	3930788	3932748
Af1300			-	-	-	-	-	-		Ciclev10008203m	scaffold_1	8539647	8542949
Af1565			-	-	-	-	-	-		Ciclev10008210m	scaffold_1	21875022	21879839
Al0305			-	-	-	-	-	-		Ciclev10021551m	scaffold_3	47200055	47201893
Bf0416			-	-	-	-	-	-		Ciclev10020574m	scaffold_3	20762974	20770394
Cp1352			-	-	-	-	-	-		Ciclev10032297m	scaffold_4	8198787	8204052
Gmom15			-	-	-	-	-	-
Lp0118		MDisagree by Marco analysis	-	-	-	-	-	-						C_unshiu_00008:mRNA_8.1	C_unshiu_00008	46363	54318	Protein trichome birefringence-like 33	AGI-02	73.759	KmG-02	75.522	JtR-02	24.745
Ov0417			-	-	-	-	-	-		Ciclev10007609m	scaffold_1	851900	857695
Tf0215			-	-	-	-	-	-		Ciclev10001099m	scaffold_5	43036925	43044008
Vt0012			-	-	-	-	-	-		Ciclev10007708m	scaffold_1	1806179	1809814
Af1031			O	-	-	-	-	-		Ciclev10025711m	scaffold_7	718488	722516	C_unshiu_00353:mRNA_22.1	C_unshiu_00353	151145	154679	3-dehydroquinate synthase AroB	AGI-02	76.168
Af1301			-	-	-	-	-	-		Ciclev10025759m	scaffold_7	866845	870030
Af1566			-	-	-	-	-	-		Ciclev10011855m	scaffold_6	15346135	15348332
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
Bf0417			-	-	-	-	-	-		Ciclev10009842m	scaffold_1	693215	695933
Cp1361		AAvailable marker	-	-	-	-	O	O		Ciclev10013042m	scaffold_6	21714716	21717652	C_unshiu_01167:mRNA_14.1	C_unshiu_01167	79036	81808	50S ribosomal 5 alpha, chloroplastic	AGI-04	52.740
Gmom16			-	-	-	-	-	-		Ciclev10019228m	scaffold_3	47476188	47479361	C_unshiu_00023:mRNA_74.1	C_unshiu_00023	480170	486801	Protein LHY	AGI-05	73.007
Lp0119		AAvailable marker	-	-	-	-	O	O	SI276	Ciclev10028631m	scaffold_8	24315720	24317671	C_unshiu_00021:mRNA_65.1	C_unshiu_00021	426040	431920	Hypothetical protein	AGI-08	8.544
Ov0418			-	-	-	-	-	-		Ciclev10015900m	scaffold_2	11863906	11865549
Tf0216			-	-	-	-	-	-		Ciclev10002569m	scaffold_5	29413143	29414562
Vt0013			-	-	-	-	-	-		Ciclev10008981m	scaffold_1	13123280	13126173
Af1032			O	-	-	-	-	-		Ciclev10009868m	scaffold_1	8377489	8379348
Af1302			-	-	-	-	-	-		Ciclev10031454m	scaffold_4	14457766	14462726
Af1567			-	-	-	-	-	-		Ciclev10016663m	scaffold_2	22759341	22763218
Al0307	Al0307.2		-	-	-	-	-	-		Ciclev10021897m	scaffold_3	7337405	7339222
Bf0418			-	-	-	-	-	-		Ciclev10002049m	scaffold_5	38489257	38490776
Cp1362			-	-	-	-	-	-		Ciclev10011842m	scaffold_6	21598429	21600967
Gmom17			-	-	-	-	-	-		Ciclev10019228m	scaffold_3	47476188	47479361
Lp0120			O	-	-	-	-	-		Ciclev10021535m	scaffold_3	50399571	50401808
Ov0419		AAvailable marker	-	-	-	-	-	O		Ciclev10011593m	scaffold_6	16709179	16712039	C_unshiu_00008:mRNA_31.2	C_unshiu_00008	178086	180944	Pyruvate decarboxylase									RP-04	11.143
Tf0217			-	-	-	-	-	-		Ciclev10001508m	scaffold_5	34910794	34916593
Vt0014			-	-	-	-	-	-		Ciclev10029694m	scaffold_8	21102979	21105476
Af1033			O	-	-	-	-	-		Ciclev10016063m	scaffold_2	10456899	10459385
Af1303			-	-	-	-	-	-		Ciclev10009361m	scaffold_1	22810929	22812161
Af1568			-	-	-	-	-	-						C_unshiu_00591:mRNA_15.1	C_unshiu_00591	108974	112318	Putative elongation factor 2-like	AGI-01	24.954
Al0308			-	-	-	-	-	-	SI045	Ciclev10028262m	scaffold_8	24521116	24524868	C_unshiu_00021:mRNA_97.1	C_unshiu_00021	630527	634212	NAD(P)H dehydrogenase B2	AGI-05	56.788
Bf0419			-	-	-	-	-	-		Ciclev10012995m	scaffold_6	8696694	8697639
Cp1366		AAvailable marker	-	-	-	-	-	O
Gmom19			-	-	-	-	-	-		Ciclev10011554m	scaffold_6	21450811	21454133	C_unshiu_00037:mRNA_27.1	C_unshiu_00037	166873	170276	Protein CCA1	AGI-04	54.804
Lp0121			-	-	-	-	-	-		Ciclev10017090m	scaffold_2	34829300	34831997
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
Tf0218			-	-	-	-	-	-		Ciclev10014499m	scaffold_2	31489811	31497594
Vt0015			-	-	-	-	-	-		Ciclev10025952m	scaffold_7	2441452	2443391	C_unshiu_00025:mRNA_49.1	C_unshiu_00025	381829	383760	Hexosyltransferase	AGI-02	70.082	KmG-02	67.054	JtR-02	21.082
Af1034			-	-	-	-	-	-		Ciclev10013228m	scaffold_6	1950121	1950908
Af1304			-	-	-	-	-	-		Ciclev10019494m	scaffold_3	2210485	2215202
Af1569			-	-	-	-	-	-		Ciclev10031754m	scaffold_4	23192472	23198396
Al0309		AAvailable marker	O	-	-	-	-	O		Ciclev10022019m	scaffold_3	44900059	44900865	C_unshiu_00069:mRNA_47.1	C_unshiu_00069	301188	317479	Hypothetical protein			KmG-05S	73.967	JtR-05	38.749			RP-05	86.332
Bf1176			-	-	-	-	-	-		Ciclev10033000m	scaffold_4	24312108	24313141
Cp1369			-	-	-	-	-	-		Ciclev10031159m	scaffold_4	24737050	24741836
Gmom22			-	-	-	-	-	-		Ciclev10032304m	scaffold_4	24041593	24043549	C_unshiu_00001:mRNA_158.1	C_unshiu_00001	1037727	1039688	NAC transcription factor NAM-B1	AGI-07	78.469	KmG-07	2.659
Lp0122		MDisagree by Marco analysis	O	-	-	-	-	-	SI170	Ciclev10026549m	scaffold_7	1309884	1311067	C_unshiu_00218:mRNA_20.1	C_unshiu_00218	98317	107740	Heterogeneous nuclear ribonucleoprotein Q							NAT-02S	69.942	RP-02.2	17.330
Ov0421	Ov0420.2		-	-	-	-	-	-		Ciclev10019489m	scaffold_3	24840386	24845254
Tf0219		Bno homozygous cultivar with minor allele	O	-	-	-	-	-	SI076,SI267	Ciclev10005087m	scaffold_9	25662049	25666791	C_unshiu_00115:mRNA_31.1	C_unshiu_00115	248109	252610	Transcription factor bHLH60	AGI-03	49.250
Vt0016			-	-	-	-	-	-		Ciclev10011403m	scaffold_6	17974828	17979364
Af1035			O	-	-	-	-	-		Ciclev10030982m	scaffold_4	23469184	23472872
Af1305			-	-	-	-	-	-		Ciclev10029439m	scaffold_8	19760077	19761961
Af1570			-	-	-	-	-	-		Ciclev10009899m	scaffold_1	4601588	4603705
Al0310	Al0309.2		-	-	-	-	-	-		Ciclev10022019m	scaffold_3	44900059	44900865
Bf1181			-	-	-	-	-	-
Cp1405			-	-	-	-	-	-		Ciclev10021000m	scaffold_3	2002427	2008126
Gmom23			-	-	-	-	-	-		Ciclev10025985m	scaffold_7	15182950	15186486	C_unshiu_01526:mRNA_4.1	C_unshiu_01526	17982	21291	Ethylene-responsive transcription factor WRI1			KmG-02	20.942
Lp0123			-	-	-	-	-	-		Ciclev10000541m	scaffold_5	32889614	32896199
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
Tf0220			-	-	-	-	-	-		Ciclev10013334m	scaffold_6	23657256	23657810
Vt0017			-	-	-	-	-	-		Ciclev10031431m	scaffold_4	23705523	23709604
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
Af1306			-	-	-	-	-	-		Ciclev10014843m	scaffold_2	28968668	28973736
Af1571			-	-	-	-	-	-		Ciclev10010323m	scaffold_1	24533064	24536628
Al0311			-	-	-	-	-	-		Ciclev10020637m	scaffold_3	5456336	5459361
Bf1182.2			-	-	-	-	-	-						No					AGI-03	56.391
Cp1407			-	-	-	-	-	-		Ciclev10031886m	scaffold_4	21243085	21244983
Gmom24			-	-	-	-	-	-		Ciclev10025985m	scaffold_7	15182950	15186486	C_unshiu_01526:mRNA_4.1	C_unshiu_01526	17982	21291	Ethylene-responsive transcription factor WRI1	AGI-02	19.971
Lp0124			-	-	-	-	-	-		Ciclev10015245m	scaffold_2	10087523	10092758
Ov0423		T3 or more alleleic model	O	-	-	-	-	-		Ciclev10023016m	scaffold_3	42954362	42955051	C_unshiu_00152:mRNA_28.1	C_unshiu_00152	189707	190632	Hypothetical protein	AGI-05	55.522
Tf0221			-	-	-	-	-	-	SI057,SI225	Ciclev10025996m	scaffold_7	490750	492882	C_unshiu_00488:mRNA_7.1	C_unshiu_00488	44813	48259	Ankyrin repeat domain-containing protein, chloroplastic	AGI-02	81.212
Vt0018			-	-	-	-	-	-		Ciclev10016206m	scaffold_2	22471208	22474774
Af1037			-	-	-	-	-	-		Ciclev10032461m	scaffold_4	1969590	1972842	C_unshiu_00058:mRNA_65.1	C_unshiu_00058	521901	525000	Uroporphyrinogen decarboxylase	AGI-04	50.972
Af1307			-	-	-	-	-	-		Ciclev10005707m	scaffold_9	5310513	5314498
Af1572			-	-	-	-	-	-		Ciclev10027884m	scaffold_8	22084232	22091205
Al0312			-	-	-	-	-	-		Ciclev10021037m	scaffold_3	4144939	4148359
Bf1185			-	-	-	-	-	-		Ciclev10003304m	scaffold_5	40993520	40993992	No					AGI-09
Cp1412			-	-	-	-	-	-		Ciclev10021694m	scaffold_3	47217428	47221472
Gmom26			-	-	-	-	-	-		Ciclev10005911m	scaffold_9	713868	716708	C_unshiu_00007:mRNA_76.1	C_unshiu_00007	473625	476336	Prefoldin subunit 3	AGI-03	10.918
Lp0125			-	-	-	-	-	-		Ciclev10004499m	scaffold_9	11150758	11155385
Ov0424			-	-	-	-	-	-		Ciclev10029115m	scaffold_8	23480483	23484398
Tf0222			-	-	-	-	-	-		Ciclev10008882m	scaffold_1	28782169	28786731
Vt0019			-	-	-	-	-	-		Ciclev10002927m	scaffold_5	41913536	41914321
Af1038			-	-	-	-	-	-
Af1308			-	-	-	-	-	-		Ciclev10025747m	scaffold_7	13625504	13630800
Af1573			-	-	-	-	-	-		Ciclev10026597m	scaffold_7	11163359	11165487
Al0313		AAvailable marker	O	-	-	-	O	O		Ciclev10011272m	scaffold_6	23966039	23969583	C_unshiu_00133:mRNA_4.2	C_unshiu_00133	22485	26003	Putative phosphatidylinositol 4-kinase type 2-beta	AGI-04	38.152	KmG-04	9.748
Bf1186			-	-	-	-	-	-	SI245	Ciclev10012047m	scaffold_6	21912438	21917736	C_unshiu_00079:mRNA_40.1	C_unshiu_00079	278696	283911	R3H domain-containing protein 2
Cp1427		AAvailable marker	-	-	-	-	O	O		Ciclev10021746m	scaffold_3	45576863	45579197	C_unshiu_00326:mRNA_5.1	C_unshiu_00326	23073	25265	Bifunctional protein FolD	AGI-05	58.917
Gmom27			-	-	-	-	-	-		Ciclev10032012m	scaffold_4	16046322	16048971
Lp0126		AAvailable marker	O	-	-	-	O	O		Ciclev10025164m	scaffold_7	3946818	3949964	C_unshiu_00801:mRNA_10.1	C_unshiu_00801	97228	100216	Phototropic-responsive NPH3 family protein	AGI-02	65.295	KmG-02	54.892	JtR-02	26.278			RP-02.2
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
Tf0223			-	-	-	-	-	-		Ciclev10028561m	scaffold_8	23774309	23780334
Vt0020			-	-	-	-	-	-		Ciclev10032461m	scaffold_4	1970129	1972842
Af1039			-	-	-	-	-	-		Ciclev10031458m	scaffold_4	14381144	14384897
Af1309			-	-	-	-	-	-		Ciclev10021713m	scaffold_3	50647753	50652010
Af1574			-	-	-	-	-	-		Ciclev10011911m	scaffold_6	14444651	14447199
Al0314			-	-	-	-	-	-		Ciclev10009591m	scaffold_1	2574769	2577568
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
Cp1428			-	-	-	-	-	-		Ciclev10020642m	scaffold_3	49195569	49198341
Gmom28			-	-	-	-	-	-		Ciclev10032943m	scaffold_4	12596113	12597155
Lp0127			-	-	-	-	-	-		Ciclev10029357m	scaffold_8	21374019	21379609
Ov0426	Ov0425.2		-	-	-	-	-	-		Ciclev10015385m	scaffold_2	4021167	4024377
Tf0224		OOthers	O	-	-	-	-	-		Ciclev10011741m	scaffold_6	7785328	7796808	C_unshiu_00104:mRNA_54.1	C_unshiu_00104	400959	412354	Zinc finger CCCH domain-containing protein 32	AGI-04	99.859
Vt0021			-	-	-	-	-	-		Ciclev10007296m	scaffold_1	2015894	2023323
Af1040			-	-	-	-	-	-		Ciclev10019364m	scaffold_3	29351854	29354190
Af1310			-	-	-	-	-	-		Ciclev10016380m	scaffold_2	14481402	14484929
Af1575			-	-	-	-	-	-		Ciclev10029551m	scaffold_8	17524835	17526697	C_unshiu_02252:mRNA_4.1	C_unshiu_02252	7997	9032	Photosystem II reaction center W protein	AGI-08	56.724
Al0315			-	-	-	-	-	-		Ciclev10028656m	scaffold_8	4905341	4909930
Bf1198			-	-	-	-	-	-
Cp1436			-	-	-	-	-	-		Ciclev10021696m	scaffold_3	48720837	48722931
Gmom29			-	-	-	-	-	-		Ciclev10000654m	scaffold_5	12677414	12680761	C_unshiu_00578:mRNA_7.1	C_unshiu_00578	77446	80730	Putative WRKY transcription factor 33	AGI-02	22.436
Lp0128			-	-	-	-	-	-		Ciclev10027734m	scaffold_8	2848884	2853210
Ov0427			-	-	-	-	-	-		Ciclev10009427m	scaffold_1	2156679	2158871	C_unshiu_00553:mRNA_14.1	C_unshiu_00553	110847	134434	Hypothetical protein			KmG-05S	36.268
Tf0225			-	-	-	-	-	-		Ciclev10015893m	scaffold_2	36211961	36216858
Vt0022			-	-	-	-	-	-		Ciclev10006852m	scaffold_9	24201196	24203794
Af1041			-	-	-	-	-	-		Ciclev10002311m	scaffold_5	40300306	40304768
Af1311			-	-	-	-	-	-		Ciclev10009720m	scaffold_1	2025698	2028188
Af1576			-	-	-	-	-	-		Ciclev10018636m	scaffold_3	41566338	41572373	No					AGI-05	47.986
Al0316			O	-	-	-	-	-		Ciclev10021599m	scaffold_3	40918148	40922656
Bf1204			-	-	-	-	-	-	SI364	Ciclev10013297m	scaffold_6	13750671	13752605	C_unshiu_00155:mRNA_3.1	C_unshiu_00155	17608	19347	Hypothetical protein
Cp1439			-	-	-	-	-	-		Ciclev10019587m	scaffold_3	47139756	47144124
Gmom31			-	-	-	-	-	-		Ciclev10008052m	scaffold_1	27783419	27789937
Lp0129			-	-	-	-	-	-		Ciclev10011622m	scaffold_6	25349417	25351949
Ov0428	Ov0427.2		-	-	-	-	-	-		Ciclev10009427m	scaffold_1	2156679	2158871
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
Vt0023			-	-	-	-	-	-		Ciclev10016079m	scaffold_2	8712236	8714558
Af1042			O	-	-	-	-	-		Ciclev10017429m	scaffold_2	28786444	28788097	No					AGI-06	55.700
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
Af1577			-	-	-	-	-	-		Ciclev10021651m	scaffold_3	6602994	6605239
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
Bf1207			-	-	-	-	-	-		Ciclev10010835m	scaffold_1	22912695	22913798	C_unshiu_00103:mRNA_59.1	C_unshiu_00103	319187	320041	Hypothetical protein	AGI-01
Cp1441			-	-	-	-	-	-		Ciclev10000384m	scaffold_5	37735873	37744747
Gn0001			-	-	-	-	-	-		Ciclev10012905m	scaffold_6	12840408	12842940
Lp0130			-	-	-	-	-	-		Ciclev10008029m	scaffold_1	11512415	11514434
Ov0429	Ov0429.k		-	-	-	-	-	-		Ciclev10015338m	scaffold_2	290799	294122
Tf0227		AAvailable marker	O	-	-	-	O	O		Ciclev10031750m	scaffold_4	21666061	21671693	C_unshiu_00010:mRNA_30.1	C_unshiu_00010	183508	188843	Trihelix transcription factor GT-1	AGI-08	35.927
Vt0024			-	-	-	-	-	-		Ciclev10005069m	scaffold_9	21593473	21597037
Af1043			-	-	-	-	-	-		Ciclev10026060m	scaffold_7	20049936	20052008	C_unshiu_00519:mRNA_19.1	C_unshiu_00519	110187	111261	Ribonucleoside-diphosphate reductase subunit M2	AGI-02	44.231
Af1313			-	-	-	-	-	-		Ciclev10014748m	scaffold_2	31222299	31225439
Af1578			-	-	-	-	-	-		Ciclev10023834m	scaffold_3	48016069	48017656
Al0318	Al0318.2	AAvailable marker	-	-	-	-	-	O		Ciclev10021392m	scaffold_3	3006218	3008357
Bf1208			-	-	-	-	-	-	SI108					No
Cp1474			-	-	-	-	-	-		Ciclev10001462m	scaffold_5	37517043	37521275
Gn0002			-	-	-	-	-	-		Ciclev10032697m	scaffold_4	3335945	3338632	C_unshiu_00465:mRNA_12.1	C_unshiu_00465	149021	153095	Hypothetical protein	AGI-07	90.233			JtR-07	64.361
Lp0131			-	-	-	-	-	-		Ciclev10006247m	scaffold_9	20390517	20391131
Ov0501			-	-	-	-	-	-		Ciclev10019938m	scaffold_3	48089473	48091232	C_unshiu_00026:mRNA_86.1	C_unshiu_00026	712172	713868	Nepenthesin II									RP-05	61.026
Tf0228			-	-	-	-	-	-		Ciclev10027952m	scaffold_8	6025802	6031497
Vt0025			-	-	-	-	-	-		Ciclev10025308m	scaffold_7	6764664	6770188
Af1044			-	-	-	-	-	-		Ciclev10013662m	scaffold_6	16378858	16383103
Af1314			-	-	-	-	-	-		Ciclev10001751m	scaffold_5	38283419	38284959
Af1579			-	-	-	-	-	-		Ciclev10006023m	scaffold_9	75348	78181
Al0319		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10022720m	scaffold_3	43447942	43449920	C_unshiu_00411:mRNA_15.1	C_unshiu_00411	140821	145311	Actin-depolymerizing factor 2	AGI-03	46.274	KmG-05S	65.273	JtR-05	42.339			RP-05	72.912
Bf1243			-	-	-	-	-	-		Ciclev10032276m	scaffold_4	24657015	24660141	C_unshiu_00001:mRNA_262.1	C_unshiu_00001	1663630	1666687	U3 small nucleolar ribonucleoprotein IMP4	AGI-07	84.114
Cp1477			-	-	-	-	-	-		Ciclev10001770m	scaffold_5	36095844	36099890	C_unshiu_01173:mRNA_9.1	C_unshiu_01173	62977	66775	Thylakoid lumenal 29 kDa protein, chloroplastic	AGI-09	54.123
Gn0003			-	-	-	-	-	-		Ciclev10025931m	scaffold_7	1207141	1210820
Lp0132			-	-	-	-	-	-		Ciclev10014204m	scaffold_2	5469050	5475142
Ov0502			-	-	-	-	-	-						C_unshiu_01254:mRNA_7.1	C_unshiu_01254	64349	65139	Hypothetical protein			KmG-04	62.093	JtR-04	3.789			RP-09
Tf0229			-	-	-	-	-	-		Ciclev10028910m	scaffold_8	24248767	24251495
Vt0026			-	-	-	-	-	-		Ciclev10024169m	scaffold_3	44691395	44694360
Af1045			-	-	-	-	-	-		Ciclev10000659m	scaffold_5	9197774	9204364
Af1315			-	-	-	-	-	-		Ciclev10025598m	scaffold_7	203839	207450
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
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
Bf1253			-	-	-	-	-	-
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
Gn0004			-	-	-	-	-	-		Ciclev10026028m	scaffold_7	6011523	6014015	C_unshiu_00696:mRNA_14.1	C_unshiu_00696	122646	125456	Flavonol synthase	AGI-02	49.699	KmG-02	38.471	JtR-02	15.126
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
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
Tf0230			-	-	-	-	-	-	SI140	Ciclev10008206m	scaffold_1	23463843	23470911	C_unshiu_00338:mRNA_22.1	C_unshiu_00338	163174	169978	NAD-dependent protein deacetylase SRT1
Vt0027			-	-	-	-	-	-		Ciclev10031408m	scaffold_4	303399	306794
Af1046			-	-	-	-	-	-		Ciclev10000873m	scaffold_5	39992234	39996269
Af1316			-	-	-	-	-	-		Ciclev10006289m	scaffold_9	685220	687072
Af1581			-	-	-	-	-	-		Ciclev10024663m	scaffold_3	27092414	27093612
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
Cp0001			O	-	-	-	-	-		Ciclev10021700m	scaffold_3	47576415	47578036
Cp1487			-	-	-	-	-	-		Ciclev10020878m	scaffold_3	541575	543121
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
Lp0134			-	-	-	-	-	-		Ciclev10007510m	scaffold_1	24480591	24484723
Ov0504	Ov0503.2		-	-	-	-	-	-		Ciclev10020582m	scaffold_3	28382218	28386683
Tf0231			-	-	-	-	-	-		Ciclev10026262m	scaffold_7	6760311	6763833
Vt0028			-	-	-	-	-	-		Ciclev10032489m	scaffold_4	18947498	18950949	C_unshiu_00039:mRNA_34.1	C_unshiu_00039	255025	269908	Hypothetical protein	AGI-07	51.998	KmG-07	44.183	JtR-07	39.088
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
Af1317			-	-	-	-	-	-		Ciclev10022803m	scaffold_3	35932198	35935023
Af1583			-	-	-	-	-	-		Ciclev10006246m	scaffold_9	29549722	29551403
Al0321.2		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10020878m	scaffold_3	541575	543121
Cp0002			O	-	-	-	-	-		Ciclev10020254m	scaffold_3	47583337	47586652
Cp1488	Cp1488.1		-	-	-	-	-	-		Ciclev10021651m	scaffold_3	6602994	6605239
Gn0005.2			-	-	-	-	-	-		Ciclev10015934m	scaffold_2	35693249	35696515
Lp0135			-	-	-	-	-	-		Ciclev10002870m	scaffold_5	39412819	39414334	C_unshiu_00457:mRNA_3.1	C_unshiu_00457	27521	28982	Xylem serinease 1-like protein					JtR-05	41.854
Ov0505		AAvailable marker	-	-	-	-	-	O		Ciclev10031252m	scaffold_4	16626338	16629094	C_unshiu_00250:mRNA_14.1	C_unshiu_00250	82573	84397	Tyrosine decarboxylase			KmG-07	53.887	JtR-07	48.672	NAT-07	3.814
Tf0232			-	-	-	-	-	-	SI258,SI261	Ciclev10001105m	scaffold_5	37066208	37070717	C_unshiu_00773:mRNA_3.1	C_unshiu_00773	31351	35269	Histone-lysine N-methyltransferase ASHR1
Vt0029			-	-	-	-	-	-		Ciclev10031975m	scaffold_4	2451345	2454325	C_unshiu_00979:mRNA_17.1	C_unshiu_00979	79016	81937	GroES-like zinc-binding alcohol dehydrogenase family protein	AGI-07	13.238
Af1048			-	-	-	-	-	-		Ciclev10019002m	scaffold_3	16357227	16363309
Af1318			-	-	-	-	-	-		Ciclev10016868m	scaffold_2	12549543	12550712
Af1584			-	-	-	-	-	-		Ciclev10026332m	scaffold_7	17424218	17426071
Al0322			-	-	-	-	-	-		Ciclev10002194m	scaffold_5	34801352	34804440
Cp0003			-	-	-	-	-	-		Ciclev10012377m	scaffold_6	11826472	11830875
Cp1488.2			-	-	-	-	-	-		Ciclev10021651m	scaffold_3	6602994	6605239
Gn0006			-	-	-	-	-	-
Lp0136			-	-	-	-	-	-		Ciclev10014127m	scaffold_2	10500879	10504450
Ov0506	Ov0505.2		-	-	-	-	-	-		Ciclev10031252m	scaffold_4	16626338	16629094
Tf0233			-	-	-	-	-	-		Ciclev10008804m	scaffold_1	6772264	6775904
Vt0030	Vt0030.k		O	-	-	-	-	-		Ciclev10024917m	scaffold_7	11271705	11277014	C_unshiu_01240:mRNA_4.1	C_unshiu_01240	27655	32960	Phospholipase D	AGI-02	12.615
Af1050			-	-	-	-	-	-		Ciclev10002662m	scaffold_5	42879563	42882316
Af1320			-	-	-	-	-	-		Ciclev10018023m	scaffold_2	34602479	34604518
Af1585			-	-	-	-	-	-		Ciclev10026687m	scaffold_7	3462353	3463444
Al0323		OOthers	-	-	-	-	-	-		Ciclev10012875m	scaffold_6	18188139	18189060
Cp0004			O	-	-	-	-	-		Ciclev10020892m	scaffold_3	48753307	48755805
Cp1489			-	-	-	-	-	-		Ciclev10021127m	scaffold_3	6577360	6582553
Gn0007.2			-	-	-	-	-	-		Ciclev10007114m	scaffold_9	17778571	17785482
Lp0137			-	-	-	-	-	-		Ciclev10021187m	scaffold_3	39657613	39660222
Ov0507		AAvailable marker	-	-	-	-	-	O		Ciclev10031860m	scaffold_4	642157	644823
Tf0234			-	-	-	-	-	-		Ciclev10005012m	scaffold_9	23476661	23480861
Vt0031			-	-	-	-	-	-
Af1051			O	-	-	-	-	-		Ciclev10000105m	scaffold_5	35093132	35106001
Af1321			-	-	-	-	-	-		Ciclev10009751m	scaffold_1	16371168	16375666	C_unshiu_00108:mRNA_25.1	C_unshiu_00108	320409	344557	Hypothetical protein	AGI-06	34.500
Af1586			-	-	-	-	-	-		Ciclev10005733m	scaffold_9	23119502	23122347	C_unshiu_00148:mRNA_17.1	C_unshiu_00148	145165	147922	Glycoprotein family protein	AGI-03	63.545
Al0324		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10029315m	scaffold_8	20424287	20425903	C_unshiu_00320:mRNA_1.2	C_unshiu_00320	12758	14314	Hypothetical protein	AGI-08	41.127					NAT-082	31.019	RP-08	17.081
Cp0006			O	-	-	-	-	-		Ciclev10031874m	scaffold_4	14610897	14614381
Cp1490			-	-	-	-	-	-		Ciclev10021970m	scaffold_3	6369398	6372018
Gn0008		OOthers	-	-	-	-	-	-	SI176	Ciclev10005632m	scaffold_9	17789634	17793258	C_unshiu_00098:mRNA_1.1	C_unshiu_00098	5120	17442	Phytoene desaturase	AGI-03	46.274
Lp0138			-	-	-	-	-	-		Ciclev10008908m	scaffold_1	2599957	2603377
Ov0508	Ov0507.2		-	-	-	-	-	-	SI322	Ciclev10031860m	scaffold_4	642157	644823	C_unshiu_00202:mRNA_16.4	C_unshiu_00202	127322	129988	Ribulose bisphosphate carboxylase/oxygenase activase, chloroplastic	AGI-07	8.291			JtR-07	76.060
Vt0032			O	-	-	-	-	-	SI024	Ciclev10024737m	scaffold_7	17901487	17905433	C_unshiu_00382:mRNA_15.1	C_unshiu_00382	163577	167662	Leucine-rich repeat receptor-like serine/threonine-protein kinase BAM1	AGI-02	25.601							RP-02	6.081
Af1052			O	-	-	-	-	-		Ciclev10004444m	scaffold_9	12808154	12820311	C_unshiu_00508:mRNA_9.1	C_unshiu_00508	40385	58179	Hypothetical protein	AGI-08	56.724
Af1322			-	-	-	-	-	-		Ciclev10003088m	scaffold_5	41715562	41717774
Af1587			-	-	-	-	-	-		Ciclev10022920m	scaffold_3	39483387	39486219
Al0325			-	-	-	-	-	-
Cp0007		ULess informative for main cultivars	O	-	-	-	-	-		Ciclev10022090m	scaffold_3	46924692	46927004
Cp1500			-	-	-	-	-	-		Ciclev10004776m	scaffold_9	7080249	7086989	C_unshiu_00161:mRNA_19.1	C_unshiu_00161	150519	157206	3-isopropylmalate dehydratase large subunit	AGI-03	46.274
Gn0009		AAvailable marker	-	-	-	-	O	O											AGI-04	57.369	KmG-04	27.843
Lp0139			-	-	-	-	-	-		Ciclev10021991m	scaffold_3	1470163	1473304
Ov0509		ULess informative for main cultivars	O	-	-	-	-	-						No					AGI-09	102.280							RP-09	21.445
Tf0236			-	-	-	-	-	-		Ciclev10000034m	scaffold_5	38595158	38602400
Vt0033			-	-	-	-	-	-		Ciclev10016829m	scaffold_2	23695881	23697100
Af1053			O	-	-	-	-	-		Ciclev10014664m	scaffold_2	29206818	29208977
Af1324			-	-	-	-	-	-		Ciclev10002404m	scaffold_5	38189669	38190638
Af1588			-	-	-	-	-	-		Ciclev10028841m	scaffold_8	6750503	6754741
Cp0009			O	-	-	-	-	-		Ciclev10018574m	scaffold_3	46143241	46147293
Cp1501			-	-	-	-	-	-		Ciclev10017197m	scaffold_2	24336809	24337802
Gn0010			-	-	-	-	-	-
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
Ov0510		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10011175m	scaffold_6	10016564	10019369	C_unshiu_00279:mRNA_11.1	C_unshiu_00279	116848	119657	Phenylalanine ammonia-lyase 1			KmG-04	62.284	JtR-04	3.789
Tf0237			-	-	-	-	-	-		Ciclev10004502m	scaffold_9	29392885	29395387
Vt0034			-	-	-	-	-	-		Ciclev10000597m	scaffold_5	39630111	39635609
Af1054			-	-	-	-	-	-		Ciclev10005132m	scaffold_9	2033331	2036879
Af1325			-	-	-	-	-	-		Ciclev10026096m	scaffold_7	6287460	6289468
Af1589			-	-	-	-	-	-		Ciclev10005524m	scaffold_9	30995129	30999295	C_unshiu_00003:mRNA_80.1	C_unshiu_00003	574672	576940	Peroxisomal 2,4-dienoyl-CoA reductase	AGI-03	77.744
Al0327	Al0326.2		-	-	-	-	-	-		Ciclev10022558m	scaffold_3	6409311	6411254
Cp0010			O	-	-	-	-	-		Ciclev10020155m	scaffold_3	45604806	45609651
Cp1523		AAvailable marker	-	-	-	-	O	O		Ciclev10005519m	scaffold_9	1356758	1359310	C_unshiu_01431:mRNA_7.1	C_unshiu_01431	31518	37086	Hypothetical protein	AGI-03	12.606
Gn0011			-	-	-	-	-	-		Ciclev10007488m	scaffold_1	24814539	24819264	C_unshiu_00341:mRNA_12.1	C_unshiu_00341	85182	89905	Sucrose synthase			KmG-01	21.459
Lp0141			-	-	-	-	-	-		Ciclev10016648m	scaffold_2	22386727	22388706
Ov0511			-	-	-	-	-	-		Ciclev10032764m	scaffold_4	6101482	6103243
Tf0238			-	-	-	-	-	-	SI114	Ciclev10026387m	scaffold_7	551893	553909	C_unshiu_01559:mRNA_5.1	C_unshiu_01559	24035	34006	Receptor-like protein kinase THESEUS 1
Vt0035			-	-	-	-	-	-		Ciclev10016383m	scaffold_2	8510712	8514409
Af1055			-	-	-	-	-	-		Ciclev10001625m	scaffold_5	42297979	42300281
Af1326			-	-	-	-	-	-		Ciclev10021439m	scaffold_3	43258339	43260615
Af1590			-	-	-	-	-	-		Ciclev10017502m	scaffold_2	9348292	9351074
Al0328			-	-	-	-	-	-		Ciclev10006155m	scaffold_9	29952005	29956306
Cp0012			O	-	-	-	-	-		Ciclev10022248m	scaffold_3	44442841	44444278
Cp1529			-	-	-	-	-	-		Ciclev10021432m	scaffold_3	4840947	4846859
Gn0012			-	-	-	-	-	-		Ciclev10018889m	scaffold_3	46011238	46017249	C_unshiu_00139:mRNA_16.1	C_unshiu_00139	135708	141900	Sucrose synthase			KmG-05S	78.527
Lp0142			-	-	-	-	-	-		Ciclev10032977m	scaffold_4	2976873	2978308
Ov0512		OOthers	O	-	-	-	-	-		Ciclev10006241m	scaffold_9	27198508	27199642	C_unshiu_00433:mRNA_19.1	C_unshiu_00433	116730	118286	Small heat shock protein	AGI-03	40.361	KmG-032	25.743	JtR-031		NAT-03
Tf0240			-	-	-	-	-	-	SI184	Ciclev10018505m	scaffold_3	42718991	42733040	C_unshiu_00386:mRNA_19.1	C_unshiu_00386	164396	178993	Myosin 2
Wy0001			-	-	-	-	-	-		Ciclev10004473m	scaffold_9	3564877	3568051
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
Af1327			-	-	-	-	-	-		Ciclev10006293m	scaffold_9	29498595	29499368
Af1591			-	-	-	-	-	-		Ciclev10030412m	scaffold_8	23674833	23676979
Al0329		AAvailable marker	O	-	-	-	O	O	SI185	Ciclev10025866m	scaffold_7	17201236	17204282	C_unshiu_00421:mRNA_21.2	C_unshiu_00421	196945	199790	Actin	AGI-02	25.162	KmG-02	11.218	JtR-02	7.174	NAT-02S	5.552	RP-02	8.191
Cp0013			-	-	-	-	-	-		Ciclev10023436m	scaffold_3	44834035	44836704
Cp1533			-	-	-	-	-	-		Ciclev10021868m	scaffold_3	4831751	4834270	C_unshiu_00768:mRNA_14.1	C_unshiu_00768	110682	113065	Lil3 protein	AGI-05	29.039
Gn0014.2		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10005481m	scaffold_9	29488658	29491181	C_unshiu_00056:mRNA_20.1	C_unshiu_00056	144107	146527	Beta-carotene hydroxylase 1
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
Ov0513		OOthers	O	-	-	-	-	-		Ciclev10011622m	scaffold_6	25349417	25351949	C_unshiu_00009:mRNA_59.1	C_unshiu_00009	325807	333424	Hypothetical protein	AGI-04	38.903	KmG-04	5.110					RP-04	60.491
Tf0241		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10027798m	scaffold_8	22106872	22114471	C_unshiu_00481:mRNA_18.1	C_unshiu_00481	121975	128680	Zinc finger CCCH domain-containing protein 24	AGI-08	27.618
Wy0002			-	-	-	-	-	-		Ciclev10022129m	scaffold_3	18472967	18473951
Af1057			-	-	-	-	-	-		Ciclev10000654m	scaffold_5	12677414	12680761
Af1328			-	-	-	-	-	-		Ciclev10022653m	scaffold_3	39834680	39837971
Af1592			-	-	-	-	-	-		Ciclev10021425m	scaffold_3	37597624	37600961
Al0330			-	-	-	-	-	-		Ciclev10009377m	scaffold_1	7455492	7457451
Cp0015			-	-	-	-	-	-		Ciclev10016927m	scaffold_2	17390389	17391229
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
Gn0016			-	-	-	-	-	-													KmG-01	18.088
Lp0144			-	-	-	-	-	-		Ciclev10027174m	scaffold_7	9452114	9461436
Ov0514			-	-	-	-	-	-		Ciclev10004975m	scaffold_9	7436355	7440439
Tf0242			-	-	-	-	-	-		Ciclev10002528m	scaffold_5	33921984	33926087
Wy0003		AAvailable marker	O	-	-	-	O	O		Ciclev10001202m	scaffold_5	37189653	37192231	C_unshiu_00144:mRNA_30.1	C_unshiu_00144	215223	217733	Aminotransferase	AGI-09	46.823	KmG-09	52.581			NAT-09	69.467
Af1058			-	-	-	-	-	-		Ciclev10018655m	scaffold_3	23001026	23009675
Af1329			-	-	-	-	-	-
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
Al0331		AAvailable marker	-	-	-	-	-	O		Ciclev10033190m	scaffold_4	8406632	8407188	C_unshiu_00111:mRNA_9.1	C_unshiu_00111	83531	84087	Hypothetical protein			KmG-09	9.593	JtR-07	52.611			RP-07	19.079
Cp0016			-	-	-	-	-	-		Ciclev10008520m	scaffold_1	18117264	18119451
Cp1567			-	-	-	-	-	-		Ciclev10014857m	scaffold_2	31148849	31150616
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
Lp0145			-	-	-	-	-	-						C_unshiu_01491:mRNA_8.1	C_unshiu_01491	47122	50568	Class I glutamine amidotransferase superfamily protein			KmG-05S	40.802	JtR-05
Ov0515			-	-	-	-	-	-		Ciclev10020337m	scaffold_3	14878427	14882285	C_unshiu_01955:mRNA_4.1	C_unshiu_01955	21970	26584	DUF760 family protein			KmG-01	40.558
Tf0243			-	-	-	-	-	-	SI231	Ciclev10032893m	scaffold_4	3636667	3641089	C_unshiu_00236:mRNA_46.1	C_unshiu_00236	271647	281392	Nuclear transcription factor Y subunit B-8
Wy0004			-	-	-	-	-	-						C_unshiu_02819:mRNA_2.1	C_unshiu_02819	2728	4118	CXE carboxylesterase	AGI-08	70.463					NAT-082	65.434
Af1059			-	-	-	-	-	-		Ciclev10011827m	scaffold_6	23066384	23072168	C_unshiu_00038:mRNA_98.1	C_unshiu_00038	554982	560549	Plastidic glucose transporter 4	AGI-04	44.840
Af1330			-	-	-	-	-	-		Ciclev10032948m	scaffold_4	19927084	19929921
Af1594			-	-	-	-	-	-		Ciclev10018838m	scaffold_3	4401159	4407506
Al0332			-	-	-	-	-	-		Ciclev10032086m	scaffold_4	14895728	14896991
Cp0018			-	-	-	-	-	-		Ciclev10005068m	scaffold_9	5605470	5610840	C_unshiu_00057:mRNA_49.1	C_unshiu_00057	415460	428173	Putative E3 ubiquitin-protein ligase HERC1	AGI-03	44.848
Cp1572			-	-	-	-	-	-		Ciclev10014734m	scaffold_2	33198880	33205481
Gn0018			-	-	-	-	-	-		Ciclev10030969m	scaffold_4	5053540	5061039	C_unshiu_00616:mRNA_15.1	C_unshiu_00616	99349	106841	V-type H+-transporting ATPase subunit A	AGI-08	84.345	KmG-02	16.986
Lp0201			-	-	-	-	-	-		Ciclev10028459m	scaffold_8	23365481	23369843
Ov0516			-	-	-	-	-	-		Ciclev10020524m	scaffold_3	35332191	35335063
Tf0244			-	-	-	-	-	-		Ciclev10001847m	scaffold_5	35674416	35675935
Wy0005		DDominant marker	O	-	-	-	-	-		Ciclev10019927m	scaffold_3	48337105	48339028	No					AGI-05	83.570	KmG-05S	122.932
Af1060			O	-	-	-	-	-		Ciclev10000400m	scaffold_5	42918371	42923480	C_unshiu_00370:mRNA_16.1	C_unshiu_00370	75283	79772	Tonoplast monosaccharide transporter 2	AGI-09	23.647
Af1331			-	-	-	-	-	-		Ciclev10002737m	scaffold_5	41386409	41389807
Af1595			-	-	-	-	-	-		Ciclev10022641m	scaffold_3	9040181	9045543
Al0333			-	-	-	-	-	-		Ciclev10004130m	scaffold_9	3954507	3961401
Cp0021			O	-	-	-	-	-		Ciclev10015229m	scaffold_2	22305297	22307562
Cp1577			-	-	-	-	-	-		Ciclev10015546m	scaffold_2	35732486	35736448
Gn0019			-	-	-	-	-	-		Ciclev10002883m	scaffold_5	26949951	26952841	C_unshiu_02041:mRNA_4.1	C_unshiu_02041	18003	20672	Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit DAD1			KmG-09	17.972	JtR-09S	22.316
Lp0202			O	-	-	-	-	-		Ciclev10006509m	scaffold_9	3131006	3134438	C_unshiu_00051:mRNA_31.2	C_unshiu_00051	239802	243699	NEDD8-activating enzyme E1 catalytic subunit	AGI-03	23.085
Ov0517			-	-	-	-	-	-
Tf0245			-	-	-	-	-	-	SI021	Ciclev10008628m	scaffold_1	18298599	18300295	C_unshiu_00548:mRNA_21.1	C_unshiu_00548	168151	169460	Hypothetical protein
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
Af1061			O	-	-	-	-	-		Ciclev10024969m	scaffold_7	6080410	6084393
Af1332			-	-	-	-	-	-		Ciclev10013051m	scaffold_6	20834427	20836151	C_unshiu_00052:mRNA_57.1	C_unshiu_00052	455959	457684	60S acidic ribosomal protein	AGI-04
Af1596			-	-	-	-	-	-		Ciclev10002542m	scaffold_5	37964989	37967950
Al0334			-	-	-	-	-	-		Ciclev10008488m	scaffold_1	18113949	18117209
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
Cp1584		AAvailable marker	-	-	-	-	-	O		Ciclev10031523m	scaffold_4	201556	204527	C_unshiu_00168:mRNA_36.1	C_unshiu_00168	285304	287905	Cell division cycle 20.1, cofactor of APC complex
Gn0021		AAvailable marker	-	-	-	-	O	O		Ciclev10000597m	scaffold_5	39630111	39635609	C_unshiu_01033:mRNA_10.1	C_unshiu_01033	47799	53166	Somatic embryogenesis receptor kinase 1	AGI-09	42.621	KmG-09	68.220	JtR-09S	97.453	NAT-09	83.381
Lp0203			-	-	-	-	-	-		Ciclev10015577m	scaffold_2	27167289	27171203
Ov0518			-	-	-	-	-	-		Ciclev10009133m	scaffold_1	17185032	17187893
Tf0246			-	-	-	-	-	-		Ciclev10029834m	scaffold_8	5718913	5719431
Wy0007			-	-	-	-	-	-		Ciclev10025280m	scaffold_7	15456948	15460803
Af1062			-	-	-	-	-	-		Ciclev10012766m	scaffold_6	14892939	14897320	C_unshiu_00102:mRNA_47.1	C_unshiu_00102	331172	333886	PRA1 family protein A1	AGI-08	93.624
Af1333			-	-	-	-	-	-		Ciclev10012166m	scaffold_6	14281197	14286862
Af1597			-	-	-	-	-	-		Ciclev10016480m	scaffold_2	13482005	13485923
Al0335			-	-	-	-	-	-		Ciclev10021844m	scaffold_3	6131214	6135849
Cp0026b	Cp0026.2		O	-	-	-	-	-		Ciclev10024128m	scaffold_3	43354404	43355588
Cp1585		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10021651m	scaffold_3	6602994	6605239	C_unshiu_00412:mRNA_10.1	C_unshiu_00412	80300	82171	Stay green protein
Gn0027		HDisagree on Clementine haploid genotype	-	-	-	-	-	-											AGI-05	43.412
Lp0204			-	-	-	-	-	-		Ciclev10008687m	scaffold_1	24523400	24526186
Ov0519			-	-	-	-	-	-
Tf0247			-	-	-	-	-	-		Ciclev10009354m	scaffold_1	20550792	20553673
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
Af1064			-	-	-	-	-	-		Ciclev10004309m	scaffold_9	30513333	30517676
Af1335			-	-	-	-	-	-		Ciclev10016822m	scaffold_2	27549660	27551146
Af1600			-	-	-	-	-	-		Ciclev10013134m	scaffold_6	22758027	22760875	C_unshiu_00038:mRNA_51.4	C_unshiu_00038	305110	307864	Negatively light-regulated protein	AGI-04	5.122
Al0336			-	-	-	-	-	-		Ciclev10001109m	scaffold_5	35917384	35925361
Cp0028			O	-	-	-	-	-		Ciclev10014471m	scaffold_2	11418331	11422116
Cp1586			-	-	-	-	-	-		Ciclev10019696m	scaffold_3	1881156	1887598
Gn0028		DDominant marker	-	-	-	-	-	-															JtR-01S	10.669
Lp0205			-	-	-	-	-	-		Ciclev10008932m	scaffold_1	4541676	4543982
Ov0520		OOthers	O	-	-	-	-	-		Ciclev10029053m	scaffold_8	4712393	4713689	C_unshiu_00438:mRNA_3.1	C_unshiu_00438	34343	35619	BURP domain-containing protein	AGI-08	33.144			JtR-08	26.748
Tf0248			-	-	-	-	-	-		Ciclev10030929m	scaffold_4	15216527	15221460
Wy0009			-	-	-	-	-	-		Ciclev10022580m	scaffold_3	48621909	48624858
Af1065			-	-	-	-	-	-		Ciclev10009538m	scaffold_1	11008759	11012720
Af1336			-	-	-	-	-	-		Ciclev10012322m	scaffold_6	8621439	8630049
Af1601			-	-	-	-	-	-		Ciclev10026686m	scaffold_7	4214423	4217517
Al0337			-	-	-	-	-	-		Ciclev10025556m	scaffold_7	6437406	6440864
Cp0030			O	-	-	-	-	-		Ciclev10019700m	scaffold_3	43815647	43818118	C_unshiu_00869:mRNA_1.1	C_unshiu_00869	176	1664	Phospholipase A1-Igamma1, chloroplastic	AGI-05	53.642
Cp1592			-	-	-	-	-	-		Ciclev10002032m	scaffold_5	41609584	41613450
Gn0029		AAvailable marker	-	-	-	-	-	O
Lp0206			O	-	-	-	-	-		Ciclev10011764m	scaffold_6	20836509	20840107	C_unshiu_00052:mRNA_56.1	C_unshiu_00052	452105	455631	Monodehydroascorbate reductase	AGI-04	58.655
Ov0521			-	-	-	-	-	-		Ciclev10003767m	scaffold_5	15168047	15173092
Tf0249			-	-	-	-	-	-		Ciclev10023300m	scaffold_3	45793877	45798206
Wy0010			-	-	-	-	-	-		Ciclev10019848m	scaffold_3	9466071	9468445
Af1066			-	-	-	-	-	-		Ciclev10024951m	scaffold_7	3887010	3890047
Af1337			-	-	-	-	-	-		Ciclev10024178m	scaffold_3	23419574	23420180
Af1602			-	-	-	-	-	-		Ciclev10017370m	scaffold_2	13350082	13351899
Al0401		OOthers	O	-	-	-	-	-		Ciclev10025346m	scaffold_7	13180567	13191638	C_unshiu_01698:mRNA_6.1	C_unshiu_01698	39336	40206	Hypothetical protein			KmG-02	26.204	JtR-02	-6.043	NAT-02S	22.960
Cp0033			O	-	-	-	-	-		Ciclev10031724m	scaffold_4	23556540	23559896
Cp1596			-	-	-	-	-	-		Ciclev10000953m	scaffold_5	35757162	35762784
Gn0030		MDisagree by Marco analysis	-	-	-	-	-	-											AGI-08	37.823	KmG-08	37.758			NAT-082	30.069
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
Ov0522			-	-	-	-	-	-		Ciclev10026806m	scaffold_7	20056475	20058190
Tf0250		AAvailable marker	O	-	-	-	O	O		Ciclev10028849m	scaffold_8	2697793	2701440	C_unshiu_00152:mRNA_36.1	C_unshiu_00152	252884	256413	DNA-directed RNA polymerase II subunit RPB3-A	AGI-08	73.105
Wy0011		OOthers	O	-	-	-	-	-	SI091	Ciclev10032364m	scaffold_4	24417602	24419019	C_unshiu_00001:mRNA_226.1	C_unshiu_00001	1429943	1431279	Enoyl CoA hydratase/isomerase	AGI-07	86.288
Af1067			O	-	-	-	-	-
Af1338			-	-	-	-	-	-		Ciclev10004154m	scaffold_9	24666092	24671850
Af1603			-	-	-	-	-	-		Ciclev10022774m	scaffold_3	42974947	42976794
Al0402		AAvailable marker	O	-	-	-	O	O						C_unshiu_00008:mRNA_88.1	C_unshiu_00008	564906	567158	Peptide upstream ORF protein, putative	AGI-08	81.190	KmG-04	44.163			NAT-04	28.388
Cp0039			O	-	-	-	-	-		Ciclev10032929m	scaffold_4	1549679	1551396	C_unshiu_00012:mRNA_98.1	C_unshiu_00012	722822	724539	LOB domain-containing protein 12	AGI-07	11.882
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
Gn0031		AtAvailable marker	-	-	-	-	O	O											AGI-08	37.706
Lp0208			-	-	-	-	-	-		Ciclev10018482m	scaffold_3	45704361	45713084	C_unshiu_00326:mRNA_24.1	C_unshiu_00326	146528	154002	ABC transporter C family member 3	AGI-03	15.136					NAT-03	28.397
Ov0523			-	-	-	-	-	-		Ciclev10011639m	scaffold_6	17762614	17767198
Tf0251			-	-	-	-	-	-	SI005					C_unshiu_00039:mRNA_19.1	C_unshiu_00039	154778	176393	Enhancer OF AG-4-like protein, putative
Wy0012			O	-	-	-	-	O		Ciclev10004385m	scaffold_9	4888531	4892972	C_unshiu_00386:mRNA_17.1	C_unshiu_00386	142436	145911	Ethylene receptor			KmG-032	11.250	JtR-031	4.898	NAT-03	11.970

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Target: Genome/map	Scaffold/LG