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
Cp0258			-	-	-	-	-	-		Ciclev10000007m	scaffold_5	36660141	36674263
Al0203			-	-	-	-	-	-		Ciclev10000021m	scaffold_5	39593309	39602756
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
Tf0236			-	-	-	-	-	-		Ciclev10000034m	scaffold_5	38595158	38602400
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
Ov0111		AAvailable marker	-	-	-	-	O	O		Ciclev10000069m	scaffold_5	8532280	8539677	C_unshiu_00033:mRNA_6.1	C_unshiu_00033	57678	65071	TSA: Wollemia nobilis transcribed RNA sequence	AGI-09	85.810	KmG-09	11.923	JtR-09S	6.157			RP-09	20.238
Al0604			-	-	-	-	-	-		Ciclev10000084m	scaffold_5	33791194	33800828
Al0604.2	Al0604.k		-	-	-	-	-	-		Ciclev10000084m	scaffold_5	33791194	33800828
Cte994			-	-	-	-	-	-		Ciclev10000084m	scaffold_5	33791194	33800828
Fb0138			-	-	-	-	-	-		Ciclev10000092m	scaffold_5	38499024	38504883	C_unshiu_00183:mRNA_7.1	C_unshiu_00183	86540	94072	Regulator of chromosome condensation (RCC1) family with FYVEzinc finger domain	AGI-09	43.862	KmG-09	54.172					SA-09	50.659
Tf0054			O	-	-	-	-	-	SI238	Ciclev10000100m	scaffold_5	43108998	43114214	C_unshiu_01422:mRNA_2.1	C_unshiu_01422	15150	33598	Hypothetical protein	AGI-09	21.045
Af1051			O	-	-	-	-	-		Ciclev10000105m	scaffold_5	35093132	35106001
Tf0084			-	-	-	-	-	-		Ciclev10000121m	scaffold_5	38288047	38296128	C_unshiu_00183:mRNA_40.1	C_unshiu_00183	305878	313881	Transcription elongation factor SPT5	AGI-09	44.096
Cp1252			-	-	-	-	-	-		Ciclev10000164m	scaffold_5	30617746	30629437
L9S501			-	-	-	-	-	-		Ciclev10000193m	scaffold_5	1411432	1414337
Edp005		HDisagree on Clementine haploid genotype	-	-	-	-	-	-		Ciclev10000211m	scaffold_5	21203994	21212595	C_unshiu_00020:mRNA_80.1	C_unshiu_00020	742433	758888	Retinoblastoma protein 2	AGI-09	105.195							RP-09	23.442
L9S518			-	-	-	-	-	-		Ciclev10000225m	scaffold_5	14344821	14350359
Cp0149			-	-	-	-	-	-		Ciclev10000231m	scaffold_5	37770343	37775957
Af1139			-	-	-	-	-	-		Ciclev10000272m	scaffold_5	42653994	42661287
L9S536			-	-	-	-	-	-		Ciclev10000273m	scaffold_5	8573281	8583459
Af1028			O	-	-	-	-	-		Ciclev10000335m	scaffold_5	42113621	42120391
L9S510			-	-	-	-	-	-		Ciclev10000342m	scaffold_5	9950356	9958602
Cp1441			-	-	-	-	-	-		Ciclev10000384m	scaffold_5	37735873	37744747
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
Cp1819			-	-	-	-	-	-		Ciclev10000418m	scaffold_5	7288321	7296238
Cp0303			-	-	-	-	-	-		Ciclev10000422m	scaffold_5	42541637	42545268
Af1645			-	-	-	-	-	-		Ciclev10000427m	scaffold_5	2472805	2477375	C_unshiu_00127:mRNA_11.1	C_unshiu_00127	52207	62775	Class I (E and Q) tRNA synthetase	AGI-09	90.878
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
Tf0404			-	-	-	-	-	-		Ciclev10000454m	scaffold_5	29808453	29811460
L9S540			-	-	-	-	-	-		Ciclev10000484m	scaffold_5	11336903	11346938
Tf0304			-	-	-	-	-	-		Ciclev10000491m	scaffold_5	953167	960232	C_unshiu_00033:mRNA_32.1	C_unshiu_00033	311804	317751	Auxin response factor	AGI-09	113.306
Tf0441			-	-	-	-	-	-		Ciclev10000491m	scaffold_5	953167	960232
Af3039			-	-	-	-	-	-		Ciclev10000497m	scaffold_5	8573281	8583459
Tf0258			-	-	-	-	-	-	SI234	Ciclev10000508m	scaffold_5	41372513	41377106	C_unshiu_00127:mRNA_21.1	C_unshiu_00127	163658	166645	BEL1-like homeodomain protein 6
Mf0015		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10000510m	scaffold_5	35125019	35129817	No
Tf0166			-	-	-	-	-	-	SI156	Ciclev10000524m	scaffold_5	19682579	19686163	C_unshiu_00050:mRNA_13.1	C_unshiu_00050	140837	153470	Hypothetical protein	AGI-09	101.351
Gmom01			-	-	-	-	-	-		Ciclev10000531m	scaffold_5	33273053	33276013
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
Lg2006	Fb2150		-	-	-	-	-	-		Ciclev10000537m	scaffold_5	39992234	39996269
Lp0123			-	-	-	-	-	-		Ciclev10000541m	scaffold_5	32889614	32896199
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
Lp0015			-	-	-	-	-	-		Ciclev10000566m	scaffold_5	42555317	42559854
L9S515			-	-	-	-	-	-		Ciclev10000571m	scaffold_5	12159643	12164071
L9S524			-	-	-	-	-	-		Ciclev10000577m	scaffold_5	19103573	19108067
Vt0034			-	-	-	-	-	-		Ciclev10000597m	scaffold_5	39630111	39635609
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
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
Af2250			-	-	-	-	-	-		Ciclev10000615m	scaffold_5	43060442	43066562
Bf0164		ULess informative for main cultivars	O	-	-	-	-	-	SI263	Ciclev10000615m	scaffold_5	43060442	43066562	C_unshiu_00370:mRNA_39.2	C_unshiu_00370	217887	223455	Pyrophosphate-dependent phosphofructokinase alpha subunit	AGI-09	21.471					NAT-09	111.981	RP-09	94.065
Tf0131.2			-	-	-	-	-	-		Ciclev10000622m	scaffold_5	35548959	35554067
Tf0360			-	-	-	-	-	-	SI112	Ciclev10000627m	scaffold_5	38669123	38672110	C_unshiu_00430:mRNA_12.1	C_unshiu_00430	98615	101120	Trihelix transcription factor GT-2	AGI-09	43.140
Al0031			-	-	-	-	-	-		Ciclev10000645m	scaffold_5	13531937	13535930
Tf0057			-	-	-	-	-	-		Ciclev10000650m	scaffold_5	21243493	21247521
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
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
Af1057			-	-	-	-	-	-		Ciclev10000654m	scaffold_5	12677414	12680761
Tf0285			-	-	-	-	-	-		Ciclev10000654m	scaffold_5	12677414	12680761
Tf0438			-	-	-	-	-	-		Ciclev10000654m	scaffold_5	12677414	12680761
Af1045			-	-	-	-	-	-		Ciclev10000659m	scaffold_5	9197774	9204364
L9S509			-	-	-	-	-	-		Ciclev10000659m	scaffold_5	9197774	9204364
Lp0216			-	-	-	-	-	-		Ciclev10000670m	scaffold_5	8440416	8447120
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
Ov0304			-	-	-	-	-	-		Ciclev10000702m	scaffold_5	6482366	6484923
Cp0137			-	-	-	-	-	-		Ciclev10000712m	scaffold_5	42139642	42144610
Cp1988			-	-	-	-	-	-		Ciclev10000728m	scaffold_5	31895665	31900513
Lp0220			O	-	-	-	-	-		Ciclev10000749m	scaffold_5	39221210	39227401	C_unshiu_00495:mRNA_21.1	C_unshiu_00495	125230	136174	Hypothetical protein	AGI-07	14.968
Cp0522			-	-	-	-	-	-		Ciclev10000761m	scaffold_5	43016598	43020200
L9S520			-	-	-	-	-	-		Ciclev10000776m	scaffold_5	15735614	15740485
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
L9S508			-	-	-	-	-	-		Ciclev10000814m	scaffold_5	8181011	8183247
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
Cp2052			-	-	-	-	-	-		Ciclev10000825m	scaffold_5	40617691	40619818
Ov0014			-	-	-	-	-	-		Ciclev10000825m	scaffold_5	40617691	40619818
Af1388			-	-	-	-	-	-		Ciclev10000833m	scaffold_5	5309895	5315706
Cp0153			-	-	-	-	-	-		Ciclev10000835m	scaffold_5	36196013	36199839
Af2820			-	-	-	-	-	-		Ciclev10000836m	scaffold_5	42437643	42442753
Bf0009			-	-	-	-	-	-		Ciclev10000845m	scaffold_5	26866036	26868420
Tf0281			-	-	-	-	-	-		Ciclev10000850m	scaffold_5	39495951	39498826
Tf0377			-	-	-	-	-	-		Ciclev10000850m	scaffold_5	39495951	39498826
L9S523			-	-	-	-	-	-		Ciclev10000858m	scaffold_5	18221785	18227885
L9S533			-	-	-	-	-	-		Ciclev10000860m	scaffold_5	7063961	7066280
Af1046			-	-	-	-	-	-		Ciclev10000873m	scaffold_5	39992234	39996269
Lp0223			-	-	-	-	-	-		Ciclev10000876m	scaffold_5	40154569	40160983
Af1430			-	-	-	-	-	-		Ciclev10000887m	scaffold_5	38059021	38064414
Fb0110			O	-	-	-	-	-	SI246	Ciclev10000900m	scaffold_5	8512380	8517835	C_unshiu_00033:mRNA_4.1	C_unshiu_00033	37755	43368	Bifunctional protein thiED	AGI-09	85.810	KmG-09	23.401	JtR-09S	5.362
Al0618		AAvailable marker	-	-	-	-	O	O		Ciclev10000916m	scaffold_5	40872793	40877775	C_unshiu_00123:mRNA_34.1	C_unshiu_00123	204269	222067	Phosphatase 2c, putative isoform 6	AGI-09	38.004	KmG-09	73.330
Mf0082			-	-	-	-	-	-		Ciclev10000921m	scaffold_5	15445701	15450041
Cp0056			O	-	-	-	-	-		Ciclev10000941m	scaffold_5	35065343	35070910
Fb0201			-	-	-	-	-	-		Ciclev10000945m	scaffold_5	6040245	6045626
Af0018			-	-	-	-	-	-		Ciclev10000947m	scaffold_5	40691801	40694522
Af1419			-	-	-	-	-	-		Ciclev10000949m	scaffold_5	37529108	37534944
Cp1596			-	-	-	-	-	-		Ciclev10000953m	scaffold_5	35757162	35762784
Af1085			-	-	-	-	-	-		Ciclev10001010m	scaffold_5	40691801	40694522
Ov0101			-	-	-	-	-	-		Ciclev10001010m	scaffold_5	40691801	40694522
Af0006			-	-	-	-	-	-		Ciclev10001011m	scaffold_5	36883103	36887975
Wy0017			-	-	-	-	-	-		Ciclev10001019m	scaffold_5	38559099	38562819
Tf0130			-	-	-	-	-	-		Ciclev10001027m	scaffold_5	19740133	19745806	C_unshiu_00050:mRNA_15.1	C_unshiu_00050	195528	200204	Transcription factor GAMYB	AGI-09	103.217
Cp0294			-	-	-	-	-	-		Ciclev10001042m	scaffold_5	34414461	34417249
Cp0230			-	-	-	-	-	-		Ciclev10001047m	scaffold_5	26935357	26947618
Bf0120			-	-	-	-	-	-		Ciclev10001047m	scaffold_5	26935357	26947618
Cp0249			-	-	-	-	-	-		Ciclev10001084m	scaffold_5	39480647	39484776	C_unshiu_00457:mRNA_14.1	C_unshiu_00457	96540	99356	Acetyltransferase component of pyruvate dehydrogenase complex	AGI-09	41.336
Af1433			-	-	-	-	-	-		Ciclev10001084m	scaffold_5	39480647	39484776
Mf0071			-	-	-	-	-	-		Ciclev10001084m	scaffold_5	39480647	39484776
If0220		AAvailable marker	-	-	-	-	-	O		Ciclev10001084m	scaffold_5	39480647	39484776	C_unshiu_00457:mRNA_15.1	C_unshiu_00457	99488	99913	Hypothetical protein
Al0639		AAvailable marker	O	-	-	-	O	O		Ciclev10001091m	scaffold_5	41703787	41708779	C_unshiu_00009:mRNA_141.1	C_unshiu_00009	874868	888901	IQ calmodulin-binding motif protein	AGI-01	70.494	KmG-01	48.992	JtR-01S	110.675	NAT-01S	94.639	RP-01	28.746
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
Tf0215			-	-	-	-	-	-		Ciclev10001099m	scaffold_5	43036925	43044008
Tf0392			-	-	-	-	-	-		Ciclev10001099m	scaffold_5	43036925	43044008
Af1615			-	-	-	-	-	-		Ciclev10001102m	scaffold_5	38108661	38114412
Tf0232			-	-	-	-	-	-	SI258,SI261	Ciclev10001105m	scaffold_5	37066208	37070717	C_unshiu_00773:mRNA_3.1	C_unshiu_00773	31351	35269	Histone-lysine N-methyltransferase ASHR1
Al0336			-	-	-	-	-	-		Ciclev10001109m	scaffold_5	35917384	35925361
Cp0266			-	-	-	-	-	-		Ciclev10001114m	scaffold_5	42875803	42879044
Af1688			-	-	-	-	-	-		Ciclev10001114m	scaffold_5	42875803	42879044
Lp0005.3			-	-	-	-	-	-		Ciclev10001133m	scaffold_5	36894365	36899326
Af1377			-	-	-	-	-	-		Ciclev10001143m	scaffold_5	32780339	32783349	C_unshiu_00224:mRNA_50.1	C_unshiu_00224	297837	300694	Seryl-tRNA synthetase (Serin-tRNA ligase)	AGI-09	70.624
Af1116			-	-	-	-	-	-		Ciclev10001154m	scaffold_5	6749024	6753178	C_unshiu_00100:mRNA_44.1	C_unshiu_00100	361556	365479	Magnesium transporter MRS2-like protein	AGI-09	85.810
L9S506			-	-	-	-	-	-		Ciclev10001154m	scaffold_5	6749024	6753178
Al0208			O	-	-	-	-	-		Ciclev10001155m	scaffold_5	40597272	40598741
Af1408			-	-	-	-	-	-		Ciclev10001178m	scaffold_5	41443667	41446709
Af1260			-	-	-	-	-	-		Ciclev10001188m	scaffold_5	38869666	38875561
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
Ov0326			-	-	-	-	-	-		Ciclev10001212m	scaffold_5	21522433	21525218
Ov0526		OOthers	-	-	-	-	-	-		Ciclev10001212m	scaffold_5	21522433	21525218	C_unshiu_00201:mRNA_11.2	C_unshiu_00201	136005	138785	Aspartic proteinase nepenthesin-1			KmG-09		JtR-09S	0.758	NAT-09
Gn0046			-	-	-	-	-	-		Ciclev10001212m	scaffold_5	21522433	21525218	C_unshiu_00201:mRNA_11.2	C_unshiu_00201	136005	138785	Aspartic proteinase nepenthesin-1	AGI-07	64.812			JtR-08	23.181
Lp0014			-	-	-	-	-	-		Ciclev10001245m	scaffold_5	33825679	33829181
Af1628			-	-	-	-	-	-		Ciclev10001249m	scaffold_5	34809345	34813138
Tf0113			-	-	-	-	-	-		Ciclev10001251m	scaffold_5	38695747	38699629
Tf0019			-	-	-	-	-	-	SI056,SI347	Ciclev10001255m	scaffold_5	41881297	41883386	C_unshiu_00009:mRNA_161.1	C_unshiu_00009	1049324	1051358	C2H2-like zinc finger protein	AGI-09	34.799
Tf0088		MDisagree by Marco analysis	O	-	-	-	-	-	SI066	Ciclev10001291m	scaffold_5	41275201	41278829	C_unshiu_00127:mRNA_34.1	C_unshiu_00127	251592	254627	Basic helix-loop-helix DNA-binding superfamily protein, putative isoform 1	AGI-09	35.763
L9S511			-	-	-	-	-	-		Ciclev10001293m	scaffold_5	9983419	9985631
Al0609			-	-	-	-	-	-		Ciclev10001329m	scaffold_5	42265153	42269676
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
Bf0102			-	-	-	-	-	-		Ciclev10001348m	scaffold_5	42390616	42395712
Af1511			-	-	-	-	-	-		Ciclev10001383m	scaffold_5	32759553	32763763
Mf0088		OOthers	O	-	-	-	-	-		Ciclev10001453m	scaffold_5	5104067	5106917	C_unshiu_00108:mRNA_11.1	C_unshiu_00108	101283	105493	60S ribosomal protein L3									RP-09
Af1526			-	-	-	-	-	-		Ciclev10001454m	scaffold_5	38852547	38855263
Cp1474			-	-	-	-	-	-		Ciclev10001462m	scaffold_5	37517043	37521275
Cp0530			-	-	-	-	-	-		Ciclev10001462m	scaffold_5	37517043	37521275
Tf0217			-	-	-	-	-	-		Ciclev10001508m	scaffold_5	34910794	34916593
Tf0394			-	-	-	-	-	-		Ciclev10001508m	scaffold_5	34910794	34916593
Al0612		Bno homozygous cultivar with minor allele	-	-	-	-	-	-		Ciclev10001524m	scaffold_5	29481817	29485113	C_unshiu_01370:mRNA_2.1	C_unshiu_01370	27014	30283	UDP-glucuronic acid decarboxylase 1			KmG-09	28.332	JtR-09S	32.873
Af1838			-	-	-	-	-	-		Ciclev10001534m	scaffold_5	6599711	6604334
Cp0257			-	-	-	-	-	-		Ciclev10001536m	scaffold_5	36526073	36528589	C_unshiu_00657:mRNA_4.1	C_unshiu_00657	52199	54744	Trehalose-phosphatase	AGI-09	48.390
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
L9S537			-	-	-	-	-	-		Ciclev10001547m	scaffold_5	9471785	9476073
Af1080			-	-	-	-	-	-		Ciclev10001557m	scaffold_5	38314989	38317341
Af1112			-	-	-	-	-	-		Ciclev10001559m	scaffold_5	41496792	41499173
If0004			-	-	-	-	-	-		Ciclev10001562m	scaffold_5	41084275	41089200
Tf0061			-	-	-	-	-	-	SI150,SI186	Ciclev10001592m	scaffold_5	35159690	35164384	C_unshiu_00764:mRNA_4.1	C_unshiu_00764	30899	36628	Auxin-responsive protein IAA8	AGI-09	61.651
Cp0281			-	-	-	-	-	-		Ciclev10001600m	scaffold_5	40628244	40630241
Cp0247			-	-	-	-	-	-		Ciclev10001611m	scaffold_5	39241458	39245153
Ov0118		AAvailable marker	O	-	-	-	O	O	SI357	Ciclev10001621m	scaffold_5	34294853	34297359	C_unshiu_03047:mRNA_1.1	C_unshiu_03047	1418	3450	Dihydrodipicolinate synthase	AGI-04	34.838	KmG-09	36.138	JtR-09S	72.673	NAT-09	55.867
Af1055			-	-	-	-	-	-		Ciclev10001625m	scaffold_5	42297979	42300281
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
Tf0287			-	-	-	-	-	-		Ciclev10001639m	scaffold_5	38186495	38189379
Af1667			-	-	-	-	-	-		Ciclev10001644m	scaffold_5	42455994	42459424
Al0227			-	-	-	-	-	-		Ciclev10001654m	scaffold_5	42217935	42222257
Cp0150			-	-	-	-	-	-		Ciclev10001657m	scaffold_5	37622887	37624944
Sd0003			-	-	-	-	-	-		Ciclev10001661m	scaffold_5	7157125	7159270
L9S507			-	-	-	-	-	-		Ciclev10001661m	scaffold_5	7157125	7159270
Wy0066	Wy0066.em		-	-	-	-	-	-		Ciclev10001670m	scaffold_5	42589392	42594049
Af1172			-	-	-	-	-	-		Ciclev10001677m	scaffold_5	35974954	35979998
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
Af1608			-	-	-	-	-	-		Ciclev10001692m	scaffold_5	42294270	42295612
Cp0518			-	-	-	-	-	-		Ciclev10001692m	scaffold_5	42294270	42295612
Cp0934			-	-	-	-	-	-		Ciclev10001707m	scaffold_5	34294853	34297047
Cp0151			-	-	-	-	-	-		Ciclev10001710m	scaffold_5	36627644	36631386
Tf0069			-	-	-	-	-	-	SI199	Ciclev10001715m	scaffold_5	38566192	38571337	C_unshiu_00183:mRNA_2.1	C_unshiu_00183	20134	26910	Transcription factor RF2b	AGI-09	42.789							RP-09	77.126
Af1133			-	-	-	-	-	-		Ciclev10001729m	scaffold_5	42978752	42983516
Tf0189			-	-	-	-	-	-		Ciclev10001738m	scaffold_5	21379384	21385293
Af1314			-	-	-	-	-	-		Ciclev10001751m	scaffold_5	38283419	38284959
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
Mf0077			-	-	-	-	-	-		Ciclev10001792m	scaffold_5	39828396	39834822
Mf0078			-	-	-	-	-	-		Ciclev10001800m	scaffold_5	17564729	17565994
Al0509			-	-	-	-	-	-		Ciclev10001812m	scaffold_5	39862762	39864726
Cp1283			-	-	-	-	-	-		Ciclev10001817m	scaffold_5	34891100	34894176
Cp0912			-	-	-	-	-	-		Ciclev10001835m	scaffold_5	30655731	30659789
Tf0244			-	-	-	-	-	-		Ciclev10001847m	scaffold_5	35674416	35675935
Wy0051	Wy0051.k		-	-	-	-	-	-		Ciclev10001849m	scaffold_5	39325976	39327488
Wy0030		AAvailable marker	O	-	-	-	O	O		Ciclev10001854m	scaffold_5	36229310	36230518	C_unshiu_00619:mRNA_10.1	C_unshiu_00619	87213	88404	EXORDIUM like 2	AGI-09	53.205	KmG-09	44.154	JtR-09S	63.577	NAT-09	65.585
Vt0005			-	-	-	-	-	-		Ciclev10001888m	scaffold_5	36449346	36452178
Cp0450		OOthers	-	-	-	-	-	-		Ciclev10001900m	scaffold_5	37478179	37482337
Ks9012			-	-	-	-	-	-		Ciclev10001908m	scaffold_5	40317721	40321609
Al0008			-	-	-	-	-	-		Ciclev10001908m	scaffold_5	40317721	40321609	C_unshiu_00054:mRNA_1.1	C_unshiu_00054	5765	8674	26S proteasome non-ATPase regulatory subunit 14									SA-09	50.699
Ov0410			-	-	-	-	-	-		Ciclev10001911m	scaffold_5	41005054	41009065
Tf0123			-	-	-	-	-	-		Ciclev10001914m	scaffold_5	41555118	41556812
Af1289			-	-	-	-	-	-		Ciclev10001940m	scaffold_5	4289876	4293681
Tf0098.2			-	-	-	-	-	-		Ciclev10001945m	scaffold_5	36550507	36552800
Af1482			-	-	-	-	-	-		Ciclev10001945m	scaffold_5	36550507	36552800	C_unshiu_00657:mRNA_2.2	C_unshiu_00657	28541	30831	DRE binding transcription factor	AGI-09	49.255
Bf0125			-	-	-	-	-	-		Ciclev10001956m	scaffold_5	15764937	15766976	C_unshiu_00293:mRNA_8.1	C_unshiu_00293	104196	105925	NAC transcription factor							NAT-03	8.920	RP-03	31.431
Tf0147			-	-	-	-	-	-		Ciclev10001956m	scaffold_5	15764937	15766976	C_unshiu_00293:mRNA_8.1	C_unshiu_00293	104196	105925	NAC transcription factor	AGI-02	22.436
Cp0468			-	-	-	-	-	-		Ciclev10001972m	scaffold_5	39459457	39464982
Al0648			-	-	-	-	-	-		Ciclev10001973m	scaffold_5	26990579	26995388
Tf0332			-	-	-	-	-	-	SI081	Ciclev10001976m	scaffold_5	37586834	37589255	C_unshiu_00985:mRNA_11.1	C_unshiu_00985	97712	99966	NAC domain-containing protein 2	AGI-09	45.548
Cp0506		AAvailable marker	O	-	-	-	O	O		Ciclev10001978m	scaffold_5	40832603	40834625	No					AGI-09	38.656
Tf0016			-	-	-	-	-	-	SI345	Ciclev10001979m	scaffold_5	39839984	39841860	C_unshiu_00169:mRNA_34.1	C_unshiu_00169	261779	263315	Transcription factor	AGI-09	42.158
Cp0345			-	-	-	-	-	-		Ciclev10002001m	scaffold_5	31874384	31876484
Tf0252			-	-	-	-	-	-		Ciclev10002005m	scaffold_5	43068093	43070554
Af3400			-	-	-	-	-	-		Ciclev10002005m	scaffold_5	43068093	43070554
Edw005			-	-	-	-	-	-		Ciclev10002005m	scaffold_5	43068093	43070554
Fb0374			-	-	-	-	-	-		Ciclev10002014m	scaffold_5	6777322	6781162
Af1648			-	-	-	-	-	-		Ciclev10002024m	scaffold_5	34558362	34564638
Cp0185			-	-	-	-	-	-		Ciclev10002024m	scaffold_5	34558362	34564638	C_unshiu_00190:mRNA_33.1	C_unshiu_00190	230947	237587	Adenine phosphoribosyltransferase	AGI-03	51.129
Ov0011			-	-	-	-	-	-		Ciclev10002024m	scaffold_5	34558362	34564638
Cp1592			-	-	-	-	-	-		Ciclev10002032m	scaffold_5	41609584	41613450
Af1422			-	-	-	-	-	-		Ciclev10002032m	scaffold_5	41609584	41613450
Af1246			-	-	-	-	-	-		Ciclev10002048m	scaffold_5	28797135	28801282
Bf0418			-	-	-	-	-	-		Ciclev10002049m	scaffold_5	38489257	38490776
L9S525			-	-	-	-	-	-		Ciclev10002050m	scaffold_5	19780298	19783698
Tf0371			-	-	-	-	-	-		Ciclev10002081m	scaffold_5	20377552	20384333	C_unshiu_00913:mRNA_4.1	C_unshiu_00913	37450	43326	Hypothetical protein	AGI-09	102.280
Bf0024			O	-	-	-	-	-	SI093	Ciclev10002093m	scaffold_5	38134662	38138860	C_unshiu_00319:mRNA_24.1	C_unshiu_00319	167810	171973	Probable protein phosphatase 2C 11	AGI-05	39.006
Tf0103			-	-	-	-	-	-		Ciclev10002094m	scaffold_5	354416	357301	C_unshiu_01920:mRNA_2.1	C_unshiu_01920	10140	12134	Putative NAC domain-containing protein 94	AGI-09	93.685
Af1437			-	-	-	-	-	-		Ciclev10002114m	scaffold_5	1474396	1479079	C_unshiu_00060:mRNA_37.1	C_unshiu_00060	309328	313345	Short-chain alcohol dehydrogenase	AGI-09	92.804
Af1434			-	-	-	-	-	-		Ciclev10002119m	scaffold_5	42348093	42350470
Af1105			-	-	-	-	-	-		Ciclev10002128m	scaffold_5	41177874	41181556
Ov0124			-	-	-	-	-	-		Ciclev10002135m	scaffold_5	29706688	29710388
Af1251			-	-	-	-	-	-		Ciclev10002135m	scaffold_5	29706688	29710388
L9S535			-	-	-	-	-	-		Ciclev10002141m	scaffold_5	8300865	8301824
Cp1675			-	-	-	-	-	-		Ciclev10002150m	scaffold_5	40226352	40230560
L9S519			-	-	-	-	-	-		Ciclev10002183m	scaffold_5	15208666	15210042
Af1479			-	-	-	-	-	-		Ciclev10002189m	scaffold_5	32699610	32702689
Tf0322			-	-	-	-	-	-		Ciclev10002191m	scaffold_5	32699553	32702689
Al0322			-	-	-	-	-	-		Ciclev10002194m	scaffold_5	34801352	34804440
Tf0338			-	-	-	-	-	-		Ciclev10002202m	scaffold_5	41492325	41495372
Lp0117			-	-	-	-	-	-		Ciclev10002215m	scaffold_5	28815314	28816638
Cp0419		AAvailable marker	-	O	-	-	O	O		Ciclev10002215m	scaffold_5	28815314	28816638	C_unshiu_00758:mRNA_1.1	C_unshiu_00758	794	4329	ATP-dependent Clp protease, proteolytic subunit ClpP	AGI-09	88.739							SA-09	44.226
Tf0070		OOthers	O	-	-	-	-	-	SI277	Ciclev10002250m	scaffold_5	39748754	39753073	C_unshiu_01089:mRNA_6.1	C_unshiu_01089	22643	26826	Basic helix-loop-helix family protein	AGI-09	45.029
Af1653			-	-	-	-	-	-		Ciclev10002255m	scaffold_5	35776946	35779494
Tf0040.2			-	-	-	-	-	-		Ciclev10002260m	scaffold_5	406520	410924
Af1224			-	-	-	-	-	-		Ciclev10002263m	scaffold_5	9979515	9982669
Cp1989			-	-	-	-	-	-		Ciclev10002271m	scaffold_5	31877030	31880023
Tf0149		HDisagree on Clementine haploid genotype	O	-	-	-	-	-	SI128,SI269	Ciclev10002290m	scaffold_5	29400846	29403554	C_unshiu_00110:mRNA_26.1	C_unshiu_00110	160409	163111	Auxin-responsive protein IAA16	AGI-09	85.976							RP-09	32.826
Af3471			-	-	-	-	-	-		Ciclev10002308m	scaffold_5	12201836	12206033
Af1041			-	-	-	-	-	-		Ciclev10002311m	scaffold_5	40300306	40304768
Fb0153			-	-	-	-	-	-		Ciclev10002324m	scaffold_5	36347986	36350649	C_unshiu_02857:mRNA_2.1	C_unshiu_02857	11994	14648	Melanoma-associated antigen G1	AGI-09	51.925							RP-09	71.621
If0006			-	-	-	-	-	-		Ciclev10002349m	scaffold_5	42489684	42491501
Mf0057		OOthers	-	-	-	-	-	-		Ciclev10002349m	scaffold_5	42489684	42491501	No
Lp0006			-	-	-	-	-	-		Ciclev10002349m	scaffold_5	42489684	42491501
Mf0040			-	-	-	-	-	-		Ciclev10002354m	scaffold_5	42809560	42811717
Af1136			-	-	-	-	-	-		Ciclev10002356m	scaffold_5	21354054	21361949
Af1517			-	-	-	-	-	-		Ciclev10002357m	scaffold_5	31091782	31094489
Al0608			-	-	-	-	-	-		Ciclev10002359m	scaffold_5	6440802	6444240
Ov0313		OOthers	-	-	-	-	-	-		Ciclev10002372m	scaffold_5	41844984	41847835	C_unshiu_00009:mRNA_157.1	C_unshiu_00009	1013478	1016014	Diphthine synthase			KmG-09	79.072
Af1138			-	-	-	-	-	-		Ciclev10002375m	scaffold_5	40560109	40563236
Af1231			-	-	-	-	-	-		Ciclev10002376m	scaffold_5	12183281	12186007
Af1403			-	-	-	-	-	-		Ciclev10002378m	scaffold_5	20818486	20821238
Lp0101			-	-	-	-	-	-		Ciclev10002394m	scaffold_5	15991108	15996585
Al0507			-	-	-	-	-	-		Ciclev10002395m	scaffold_5	17289723	17290702
Af1205			-	-	-	-	-	-		Ciclev10002396m	scaffold_5	34161721	34162652	C_unshiu_00196:mRNA_4.1	C_unshiu_00196	15219	16117	Basic helix-loop-helix DNA-binding superfamily protein, putative	AGI-09	64.754
Af1324			-	-	-	-	-	-		Ciclev10002404m	scaffold_5	38189669	38190638
Al0016			-	-	-	-	-	-		Ciclev10002413m	scaffold_5	2189584	2190474
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
Tf0324			-	-	-	-	-	-		Ciclev10002438m	scaffold_5	39986260	39987337
L9S517			-	-	-	-	-	-		Ciclev10002443m	scaffold_5	13064040	13065284
Al0634		OOthers	-	-	-	-	-	-		Ciclev10002460m	scaffold_5	29400846	29403554
Af3808			-	-	-	-	-	-		Ciclev10002466m	scaffold_5	176650	180562
Tf0003.2		OOthers	O	-	-	-	-	-		Ciclev10002471m	scaffold_5	37808878	37811097	C_unshiu_00238:mRNA_14.1	C_unshiu_00238	116142	129209	Hypothetical protein	AGI-09	44.054
Cp1986			-	-	-	-	-	-		Ciclev10002475m	scaffold_5	42329951	42331110
L9S512			-	-	-	-	-	-		Ciclev10002503m	scaffold_5	11129409	11130029
Af2344			-	-	-	-	-	-		Ciclev10002506m	scaffold_5	43051579	43053394
Fb0326			O	-	-	-	-	-		Ciclev10002506m	scaffold_5	43051579	43053394	C_unshiu_00370:mRNA_38.1	C_unshiu_00370	207050	209216	Cell division control protein 2	AGI-09	8.959							RP-09	78.225
Af1341			-	-	-	-	-	-		Ciclev10002526m	scaffold_5	43186618	43188986
Af1538			-	-	-	-	-	-		Ciclev10002528m	scaffold_5	33921984	33926087
Tf0242			-	-	-	-	-	-		Ciclev10002528m	scaffold_5	33921984	33926087
Ks9008			-	-	-	-	-	-		Ciclev10002532m	scaffold_5	30631872	30632814
Af1596			-	-	-	-	-	-		Ciclev10002542m	scaffold_5	37964989	37967950
Wy0024			-	-	-	-	-	-		Ciclev10002554m	scaffold_5	21581031	21583751
Tf0216			-	-	-	-	-	-		Ciclev10002569m	scaffold_5	29413143	29414562
Tf0093.2		AAvailable marker	O	-	-	-	O	O		Ciclev10002569m	scaffold_5	29413143	29414562	C_unshiu_00110:mRNA_25.1	C_unshiu_00110	149681	150624	Auxin-responsive protein IAA4	AGI-09	86.512
Tf0393		AAvailable marker	O	-	-	-	-	O		Ciclev10002569m	scaffold_5	29413143	29414562	C_unshiu_00110:mRNA_25.1	C_unshiu_00110	149681	150624	Auxin-responsive protein IAA4									RP-09	29.347
Af1385			-	-	-	-	-	-		Ciclev10002573m	scaffold_5	36106050	36109239
Fb0313			-	-	-	-	-	-		Ciclev10002602m	scaffold_5	29803196	29804310	C_unshiu_00570:mRNA_7.1	C_unshiu_00570	69328	70168	Mitochondrial import inner membrane translocase subunit tim23									RP-07	9.871
Bf0016			O	-	-	-	-	-		Ciclev10002605m	scaffold_5	35782419	35784765	C_unshiu_00255:mRNA_23.1	C_unshiu_00255	146364	148653	Protein CutA 1, chloroplastic									RP-09	67.943
Af2392			-	-	-	-	-	-		Ciclev10002611m	scaffold_5	39204025	39206398
Af1050			-	-	-	-	-	-		Ciclev10002662m	scaffold_5	42879563	42882316
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
Cp0510			-	-	-	-	-	-		Ciclev10002669m	scaffold_5	41208820	41211050
L9S504			-	-	-	-	-	-		Ciclev10002670m	scaffold_5	4526709	4528008
Cp2232		AAvailable marker	-	-	-	-	O	O		Ciclev10002687m	scaffold_5	17809523	17810742	C_unshiu_01815:mRNA_5.1	C_unshiu_01815	28593	29777	Photosystem I reaction center subunit N	AGI-02	22.436
Af1206			-	-	-	-	-	-		Ciclev10002697m	scaffold_5	42109316	42112542
Wy0031			-	-	-	-	-	-		Ciclev10002698m	scaffold_5	42326135	42327438
Cp0519			-	-	-	-	-	-		Ciclev10002698m	scaffold_5	42326135	42327438
Edb006			-	-	-	-	-	-		Ciclev10002733m	scaffold_5	39974113	39975525
Af1331			-	-	-	-	-	-		Ciclev10002737m	scaffold_5	41386409	41389807
Lg2005			-	-	-	-	-	-		Ciclev10002751m	scaffold_5	42187714	42189727	C_unshiu_00192:mRNA_45.1	C_unshiu_00192	319592	321612	SCF ubiquitin ligase, SKP1 component	AGI-09	34.172
Af1658			-	-	-	-	-	-		Ciclev10002760m	scaffold_5	26168594	26171673
Cp1996		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10002770m	scaffold_5	29463604	29466318	C_unshiu_01370:mRNA_6.1	C_unshiu_01370	46574	49106	Sec-independent protein translocase protein TatA	AGI-09	86.532							RP-09	33.820
Af2022			-	-	-	-	-	-		Ciclev10002788m	scaffold_5	9976757	9977512
L9S539			-	-	-	-	-	-		Ciclev10002788m	scaffold_5	9976757	9977512
Tf0297			-	-	-	-	-	-		Ciclev10002789m	scaffold_5	42799538	42801821
Tf0031.2			-	-	-	-	-	-		Ciclev10002789m	scaffold_5	42799538	42801821
Tf0159			-	-	-	-	-	-		Ciclev10002789m	scaffold_5	42799538	42801821
Cp0065			O	-	-	-	-	-		Ciclev10002793m	scaffold_5	8435123	8435971	C_unshiu_01044:mRNA_2.1	C_unshiu_01044	7117	7963	Ferredoxin	AGI-09	86.996
Af3244			-	-	-	-	-	-		Ciclev10002793m	scaffold_5	8435123	8435971
Af1135			-	-	-	-	-	-		Ciclev10002795m	scaffold_5	33256354	33257201
Cp0050			O	-	-	-	-	-		Ciclev10002804m	scaffold_5	32313299	32314734
Af2596			-	-	-	-	-	-		Ciclev10002840m	scaffold_5	38154975	38155769	C_unshiu_00319:mRNA_29.1	C_unshiu_00319	189073	189599	Basic blue protein	AGI-09	57.830
Af1375			-	-	-	-	-	-		Ciclev10002846m	scaffold_5	36986113	36987382
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
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
Af1504			-	-	-	-	-	-		Ciclev10002895m	scaffold_5	2461406	2462911
L9S521			-	-	-	-	-	-		Ciclev10002914m	scaffold_5	16049006	16051176
Tf0151		AAvailable marker	O	-	-	-	O	O	SI159,SI281	Ciclev10002917m	scaffold_5	35357333	35359897	No					AGI-09	60.528							RP-09	41.892
Vt0019			-	-	-	-	-	-		Ciclev10002927m	scaffold_5	41913536	41914321
Mf0016			-	-	-	-	-	-		Ciclev10002951m	scaffold_5	33411667	33413970
L9S522			-	-	-	-	-	-		Ciclev10002980m	scaffold_5	17394017	17394732
L9S503			-	-	-	-	-	-		Ciclev10003049m	scaffold_5	3004724	3008333
Af1322			-	-	-	-	-	-		Ciclev10003088m	scaffold_5	41715562	41717774
L9S514			-	-	-	-	-	-		Ciclev10003124m	scaffold_5	11677155	11678430
L9S502			-	-	-	-	-	-		Ciclev10003166m	scaffold_5	1875696	1877290
Cp0051			O	-	-	-	-	-		Ciclev10003175m	scaffold_5	33322029	33325343
Af1254			-	-	-	-	-	-		Ciclev10003301m	scaffold_5	36751453	36759896
Bf1185			-	-	-	-	-	-		Ciclev10003304m	scaffold_5	40993520	40993992	No					AGI-09
L9S538			-	-	-	-	-	-		Ciclev10003348m	scaffold_5	9591276	9592610
L9S516			-	-	-	-	-	-		Ciclev10003378m	scaffold_5	12722282	12722998
L9S534			-	-	-	-	-	-		Ciclev10003417m	scaffold_5	8058499	8060536
Af1439			-	-	-	-	-	-		Ciclev10003449m	scaffold_5	14888278	14889824
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
Af1180			-	-	-	-	-	-		Ciclev10003612m	scaffold_5	27192350	27195683
L9S513			-	-	-	-	-	-		Ciclev10003624m	scaffold_5	11355972	11358542
L9S531			-	-	-	-	-	-		Ciclev10003634m	scaffold_5	4909247	4911803
Lp0029			-	-	-	-	-	-		Ciclev10003645m	scaffold_5	329518	331024
Bf0127			-	-	-	-	-	-		Ciclev10003654m	scaffold_5	24456425	24462454
Cp2013			-	-	-	-	-	-		Ciclev10003676m	scaffold_5	40431405	40438162
Bf0410			-	-	-	-	-	-		Ciclev10003680m	scaffold_5	32917826	32924241
Bf0101			-	-	-	-	-	-		Ciclev10003680m	scaffold_5	32917826	32924241	C_unshiu_00229:mRNA_13.1	C_unshiu_00229	57438	62744	Hypothetical protein							NAT-09	50.353
Ov0521			-	-	-	-	-	-		Ciclev10003767m	scaffold_5	15168047	15173092
L9S532			-	-	-	-	-	-		Ciclev10003840m	scaffold_5	6781009	6783205
L9S505			-	-	-	-	-	-		Ciclev10003989m	scaffold_5	5815715	5818239
Tf0340			-	-	-	-	-	-		Ciclev10003996m	scaffold_5	27123826	27127430
Tf0138			-	-	-	-	-	-		Ciclev10003996m	scaffold_5	27123826	27127430
Af0010			-	-	-	-	-	-		Ciclev10004080m	scaffold_5	40297492	40299711
Tf0169			-	-	-	-	-	-		Ciclev10004115m	scaffold_9	2284484	2302268
Al0333			-	-	-	-	-	-		Ciclev10004130m	scaffold_9	3954507	3961401
Cp1772		OOthers	-	-	-	-	-	-		Ciclev10004137m	scaffold_9	20009769	20033079
Af1338			-	-	-	-	-	-		Ciclev10004154m	scaffold_9	24666092	24671850
Fb0329			-	-	-	-	-	-		Ciclev10004180m	scaffold_9	29237838	29242883	C_unshiu_00606:mRNA_2.1	C_unshiu_00606	13693	18703	Methyltransferase MT-A70 family protein isoform 1	AGI-03	60.686
Fb0331			-	-	-	-	-	-		Ciclev10004211m	scaffold_9	1799556	1809946
Ov0416			-	-	-	-	-	-		Ciclev10004279m	scaffold_9	24807948	24823388
Af1064			-	-	-	-	-	-		Ciclev10004309m	scaffold_9	30513333	30517676
Mf0101		OOthers	-	-	-	-	-	-		Ciclev10004309m	scaffold_9	30513333	30517676
Ov0109		MDisagree by Marco analysis	O	-	-	-	-	-	SI172,SI202	Ciclev10004309m	scaffold_9	30513333	30517676	C_unshiu_00003:mRNA_13.1	C_unshiu_00003	122283	126575	Elongation factor 2	AGI-03	71.060			JtR-032	13.729			RP-03	71.532
Af1700			-	-	-	-	-	-		Ciclev10004322m	scaffold_9	18502293	18505531	C_unshiu_00138:mRNA_34.1	C_unshiu_00138	182719	186200	Putative receptor protein kinase TMK1	AGI-03	54.060
Fb0270			-	-	-	-	-	-		Ciclev10004347m	scaffold_9	23454445	23457114
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
Fb1227			-	-	-	-	-	-		Ciclev10004375m	scaffold_9	3367718	3376062	C_unshiu_00051:mRNA_60.1	C_unshiu_00051	463042	471084	Chloride channel protein	AGI-03	19.631
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
Af1414			-	-	-	-	-	-		Ciclev10004385m	scaffold_9	4888531	4892972	C_unshiu_00386:mRNA_17.1	C_unshiu_00386	142436	145911	Ethylene receptor	AGI-03	50.895
Lp0039			-	-	-	-	-	-		Ciclev10004396m	scaffold_9	22309970	22314448
Af1672			-	-	-	-	-	-		Ciclev10004406m	scaffold_9	1933927	1940744
Af1621			-	-	-	-	-	-		Ciclev10004420m	scaffold_9	15626737	15638532
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
Af1052			O	-	-	-	-	-		Ciclev10004444m	scaffold_9	12808154	12820311	C_unshiu_00508:mRNA_9.1	C_unshiu_00508	40385	58179	Hypothetical protein	AGI-08	56.724
Tf0140			-	-	-	-	-	-		Ciclev10004457m	scaffold_9	225971	232459	C_unshiu_00007:mRNA_144.1	C_unshiu_00007	929895	935477	Squamosa promoter-binding-like protein 1	AGI-03	9.830
Gn0079			-	-	-	-	-	-		Ciclev10004459m	scaffold_9	28065538	28070492
Tf0437			-	-	-	-	-	-		Ciclev10004471m	scaffold_9	1148083	1152025
Wy0001			-	-	-	-	-	-		Ciclev10004473m	scaffold_9	3564877	3568051
Cp1951			-	-	-	-	-	-		Ciclev10004474m	scaffold_9	543444	546746
Cp0996		Bno homozygous cultivar with minor allele	-	-	-	-	-	-	SI340	Ciclev10004474m	scaffold_9	543444	546746	C_unshiu_00007:mRNA_105.1	C_unshiu_00007	630727	633783	Neutral/alkaline invertase	AGI-03	9.366
Tf0178			-	-	-	-	-	-		Ciclev10004481m	scaffold_9	7232959	7238380
Wy0014			-	-	-	-	-	-		Ciclev10004481m	scaffold_9	7232959	7238380
Lp0125			-	-	-	-	-	-		Ciclev10004499m	scaffold_9	11150758	11155385
Tf0237			-	-	-	-	-	-		Ciclev10004502m	scaffold_9	29392885	29395387
Af1358			-	-	-	-	-	-		Ciclev10004514m	scaffold_9	566506	571956
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
Cp0571			-	-	-	-	-	-		Ciclev10004533m	scaffold_9	11993282	11999324
Tf0388			O	-	-	-	-	-		Ciclev10004533m	scaffold_9	11993282	11999324
Al0623			-	-	-	-	-	-		Ciclev10004560m	scaffold_9	5648639	5654374
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
Cp0234			-	-	-	-	-	-		Ciclev10004626m	scaffold_9	29874798	29879735
Lp0008			-	-	-	-	-	-		Ciclev10004626m	scaffold_9	29874798	29879735
Cp1113			-	-	-	-	-	-		Ciclev10004638m	scaffold_9	987368	992630
Cp1114			-	-	-	-	-	-		Ciclev10004644m	scaffold_9	870926	875408
Cp0336			-	-	-	-	-	-		Ciclev10004655m	scaffold_9	31244440	31250356	C_unshiu_00003:mRNA_113.1	C_unshiu_00003	809668	815079	ABC transporter D family member 2, chloroplastic	AGI-03	79.515
Al0415		AAvailable marker	-	-	-	-	O	O	SI120,SI310	Ciclev10004660m	scaffold_9	2732900	2738896	C_unshiu_00040:mRNA_76.1	C_unshiu_00040	632823	638463	Mitogen-activated protein kinase 14	AGI-03	24.885	KmG-031				NAT-03	41.576
Af1521			-	-	-	-	-	-		Ciclev10004680m	scaffold_9	9799746	9804461
Af3822			-	-	-	-	-	-		Ciclev10004695m	scaffold_9	5494254	5497030	C_unshiu_00164:mRNA_13.1	C_unshiu_00164	74059	75936	Phosphate transporter	AGI-03	44.864
Al0628			-	-	-	-	-	-		Ciclev10004696m	scaffold_9	28974337	28977865	C_unshiu_00045:mRNA_76.1	C_unshiu_00045	547196	550605	O-glucosyltransferase rumi like			KmG-031	5.650
Al0418			-	-	-	-	-	-		Ciclev10004717m	scaffold_9	27765515	27767561
Gn0067		OOthers	O	-	-	-	-	-	SI204,SI349	Ciclev10004730m	scaffold_9	22728310	22730086	C_unshiu_00295:mRNA_17.1	C_unshiu_00295	207257	208985	Lycopene beta-cyclase	AGI-03	46.274
Al0009			-	-	-	-	-	-		Ciclev10004753m	scaffold_9	3688973	3692790
Af1638			-	-	-	-	-	-		Ciclev10004755m	scaffold_9	28984972	28989373	C_unshiu_00045:mRNA_79.1	C_unshiu_00045	556440	562091	Tubulin	AGI-03	34.554
Ks9011		AAvailable marker	-	-	-	-	-	O		Ciclev10004755m	scaffold_9	28984972	28989373	C_unshiu_00045:mRNA_79.1	C_unshiu_00045	556440	562091	Tubulin					JtR-032
Tf0143			-	-	-	-	-	-	SI127	Ciclev10004758m	scaffold_9	30040457	30044615	C_unshiu_00134:mRNA_22.1	C_unshiu_00134	203848	206784	Sigma factor	AGI-03	68.846
Ov0401		MDisagree by Marco analysis	O	-	-	-	-	-		Ciclev10004762m	scaffold_9	28736008	28740315	No							KmG-08	58.635					SA-06
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
Al0249			-	-	-	-	-	-		Ciclev10004782m	scaffold_9	30490331	30496586
Mf0044			-	-	-	-	-	-		Ciclev10004832m	scaffold_9	28081760	28084212
Bf0150			-	-	-	-	-	-	SI316,SI370	Ciclev10004834m	scaffold_9	31018836	31027361	C_unshiu_00003:mRNA_85.1	C_unshiu_00003	596288	610960	Aldehyde dehydrogenase	AGI-03	77.920							RP-03	77.748
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
Ov0104		AAvailable marker	O	-	-	-	O	O	SI216	Ciclev10004850m	scaffold_9	13440332	13442904	C_unshiu_02379:mRNA_2.1	C_unshiu_02379	22906	25482	Obtusifoliol 14-alpha demethylase	AGI-08	56.724			JtR-08	28.207
Lp0013			-	-	-	-	-	-		Ciclev10004852m	scaffold_9	16971264	16973312	C_unshiu_00122:mRNA_43.1	C_unshiu_00122	389000	391027	Adenosylhomocysteinase			KmG-09	15.606
Bf0130			-	-	-	-	-	-	SI063,SI188	Ciclev10004858m	scaffold_9	26981498	26984277	C_unshiu_00095:mRNA_24.1	C_unshiu_00095	228406	230902	F-box family protein isoform 1	AGI-03	40.452
Wy0036			-	-	-	-	-	-		Ciclev10004868m	scaffold_9	17114361	17116036
Lp0214			-	-	-	-	-	-		Ciclev10004881m	scaffold_9	17070431	17072209
Tf0038.2			-	-	-	-	-	-		Ciclev10004955m	scaffold_9	25922689	25932568
Cp1977		OOthers	-	-	-	-	-	-		Ciclev10004968m	scaffold_9	18174858	18179752
Ov0514			-	-	-	-	-	-		Ciclev10004975m	scaffold_9	7436355	7440439
Tf0276			-	-	-	-	-	-		Ciclev10004999m	scaffold_9	1169260	1172055
Fb0231			-	-	-	-	-	-		Ciclev10004999m	scaffold_9	1169260	1172055	C_unshiu_00007:mRNA_2.1	C_unshiu_00007	6589	14596	Two-component response regulator ARR12-like protein									RP-03	1.143
Tf0234			-	-	-	-	-	-		Ciclev10005012m	scaffold_9	23476661	23480861
If0201			-	-	-	-	-	-		Ciclev10005030m	scaffold_9	28608335	28612490
Af1132			-	-	-	-	-	-		Ciclev10005061m	scaffold_9	1836250	1840208
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
Tf0383			-	-	-	-	-	-		Ciclev10005062m	scaffold_9	16383851	16393557
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
Vt0024			-	-	-	-	-	-		Ciclev10005069m	scaffold_9	21593473	21597037
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
Tf0396		Bno homozygous cultivar with minor allele	O	-	-	-	-	-	SI035	Ciclev10005087m	scaffold_9	25662049	25666791	C_unshiu_00115:mRNA_31.1	C_unshiu_00115	248109	252610	Transcription factor bHLH60
Tf0423			-	-	-	-	-	-		Ciclev10005087m	scaffold_9	25662049	25666791	C_unshiu_00115:mRNA_31.1	C_unshiu_00115	248109	252610	Transcription factor bHLH60	AGI-03	50.361
Bf0005			-	-	-	-	-	-	SI194	Ciclev10005100m	scaffold_9	465444	468143	C_unshiu_00007:mRNA_115.1	C_unshiu_00007	710354	712926	Phosphatase 2C family protein	AGI-03	8.177
Al0506			-	-	-	-	-	-		Ciclev10005101m	scaffold_9	30836435	30841216
Tf0361			-	-	-	-	-	-		Ciclev10005102m	scaffold_9	30778803	30783116
Al0245			-	-	-	-	-	-		Ciclev10005107m	scaffold_9	25185200	25188839
Bf0020			-	-	-	-	-	-		Ciclev10005107m	scaffold_9	25185200	25188839	C_unshiu_00119:mRNA_25.1	C_unshiu_00119	238437	248656	Guanylate kinase	AGI-03	47.887							RP-03	37.189
Lp0035			-	-	-	-	-	-		Ciclev10005111m	scaffold_9	27259813	27263097
Af1490			-	-	-	-	-	-		Ciclev10005113m	scaffold_9	4742709	4745030
Af1054			-	-	-	-	-	-		Ciclev10005132m	scaffold_9	2033331	2036879
Gn0097			-	-	-	-	-	-		Ciclev10005133m	scaffold_9	10246239	10248409	C_unshiu_00372:mRNA_8.1	C_unshiu_00372	77039	79209	Naringenin-chalcone synthase	AGI-02
Al0619			-	-	-	-	-	-		Ciclev10005142m	scaffold_9	2234066	2238313	C_unshiu_00311:mRNA_12.1	C_unshiu_00311	55933	60057	TLP domain class transcription factor	AGI-01	57.863	KmG-01	39.698
Tf0111			-	-	-	-	-	-		Ciclev10005142m	scaffold_9	2234066	2238313
Tf0425			-	-	-	-	-	-		Ciclev10005142m	scaffold_9	2234066	2238313
Cp1925		AAvailable marker	-	-	-	-	O	O		Ciclev10005182m	scaffold_9	3115971	3120271	C_unshiu_00051:mRNA_29.1	C_unshiu_00051	224928	229203	YjeF family domain-containing protein	AGI-03	24.457
Bf0183			O	-	-	-	-	-	SI308	Ciclev10005208m	scaffold_9	5254416	5256826	C_unshiu_01106:mRNA_9.1	C_unshiu_01106	77275	79234	Hypothetical protein
Bf0004			-	-	-	-	-	-	SI273	Ciclev10005212m	scaffold_9	29563003	29568705	C_unshiu_00056:mRNA_33.1	C_unshiu_00056	220997	225323	Pentatricopeptide repeat superfamily protein, putative isoform 1	AGI-03	58.312
Cp1031		AAvailable marker	-	O	-	-	O	O		Ciclev10005224m	scaffold_9	2324313	2328666	C_unshiu_00394:mRNA_4.1	C_unshiu_00394	11970	16480	Putative E3 ubiquitin-protein ligase MARCH10	AGI-03	18.610
Ov0013		OOthers	-	-	-	-	-	-		Ciclev10005251m	scaffold_9	18058387	18060752	C_unshiu_00556:mRNA_14.1	C_unshiu_00556	103101	105466	Caffeic acid 3-O-methyltransferase	AGI-03	50.691	KmG-032	18.852	JtR-031	11.918			RP-03	38.986
Af1640			-	-	-	-	-	-		Ciclev10005272m	scaffold_9	29342369	29345806
Fb0149			-	-	-	-	-	-		Ciclev10005274m	scaffold_9	17436969	17441987
Bf0119			O	-	-	-	-	-		Ciclev10005276m	scaffold_9	10744341	10746393
Af1027			O	-	-	-	-	-		Ciclev10005293m	scaffold_9	2946301	2950297
Cp1923		OOthers	-	-	-	-	-	-		Ciclev10005293m	scaffold_9	2946301	2950297	C_unshiu_00097:mRNA_22.1	C_unshiu_00097	195825	199499	UPF0613 protein PB24D3.06c	AGI-03	22.454
Tf0097			-	-	-	-	-	-		Ciclev10005329m	scaffold_9	13039313	13041944
Af1559			-	-	-	-	-	-		Ciclev10005333m	scaffold_9	2211862	2215512
Af1552			-	-	-	-	-	-		Ciclev10005340m	scaffold_9	30527060	30531535
Af1183			-	-	-	-	-	-		Ciclev10005344m	scaffold_9	280915	283060
Gn0052			-	-	-	-	-	-		Ciclev10005365m	scaffold_9	10357084	10359834	C_unshiu_00367:mRNA_10.1	C_unshiu_00367	100255	102997	Male sterility MS5 family protein			KmG-032	15.450	JtR-031	12.830
Wy0032		OOthers	O	-	-	-	O	O		Ciclev10005365m	scaffold_9	10357084	10359834	C_unshiu_00367:mRNA_10.1	C_unshiu_00367	100255	102997	Male sterility MS5 family protein	AGI-03	46.121	KmG-032	14.572	JtR-031	12.840
Tf0074			O	-	-	-	-	-		Ciclev10005366m	scaffold_9	28444512	28446074	C_unshiu_00045:mRNA_7.1	C_unshiu_00045	62608	63842	TCP family transcription factor	AGI-03	37.816
Fb0180			-	-	-	-	-	-	SI209	Ciclev10005370m	scaffold_9	27734482	27736035	C_unshiu_00252:mRNA_1.1	C_unshiu_00252	12109	13626	Hypothetical protein									RP-03	56.919
Cp2060			-	-	-	-	-	-		Ciclev10005381m	scaffold_9	4503739	4508011
Wy0020			-	-	-	-	-	-	SI007	Ciclev10005394m	scaffold_9	5549195	5553148	C_unshiu_00164:mRNA_5.1	C_unshiu_00164	17046	20923	Malate dehydrogenase	AGI-03	43.563
Tf0072			-	-	-	-	-	-		Ciclev10005403m	scaffold_9	28757274	28759075	C_unshiu_00045:mRNA_48.1	C_unshiu_00045	372168	373811	Heat stress transcription factor B-4	AGI-03	35.962
Vt0004			-	-	-	-	-	-		Ciclev10005408m	scaffold_9	9805899	9809222
Ov0001			-	-	-	-	-	-		Ciclev10005408m	scaffold_9	9805899	9809222
Af1214			-	-	-	-	-	-		Ciclev10005447m	scaffold_9	12839345	12844087
Af1263			-	-	-	-	-	-		Ciclev10005448m	scaffold_9	28494348	28496251
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
Af1644			-	-	-	-	-	-		Ciclev10005467m	scaffold_9	31105158	31108119
Tf0206			-	-	-	-	-	-		Ciclev10005479m	scaffold_9	23161294	23166939
Tf0384			-	-	-	-	-	-		Ciclev10005479m	scaffold_9	23161294	23166939
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
Cp1612			-	-	-	-	-	-		Ciclev10005481m	scaffold_9	29488658	29491181
Af1371			-	-	-	-	-	-		Ciclev10005481m	scaffold_9	29488658	29491181
Gn0077			-	-	-	-	-	-		Ciclev10005481m	scaffold_9	29488658	29491181
Ov0323			-	-	-	-	-	-		Ciclev10005490m	scaffold_9	5549195	5553148
Al0202			-	-	-	-	-	-		Ciclev10005495m	scaffold_9	12740846	12745213
Af1558			-	-	-	-	-	-		Ciclev10005504m	scaffold_9	29608462	29612474
Af1006			-	-	-	-	-	-		Ciclev10005512m	scaffold_9	24661109	24664797
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
Fb0146			-	-	-	-	-	-		Ciclev10005519m	scaffold_9	1356758	1359310
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
Af1069			-	-	-	-	-	-		Ciclev10005528m	scaffold_9	1787121	1788837
Af1421			-	-	-	-	-	-		Ciclev10005570m	scaffold_9	26047509	26048622
Cp1034		AtAvailable marker	-	-	-	-	O	O		Ciclev10005575m	scaffold_9	21107894	21109983	C_unshiu_00160:mRNA_22.1	C_unshiu_00160	182942	184946	Putative calcium-binding protein CML48	AGI-03	46.760
Al0424			-	-	-	-	-	-		Ciclev10005576m	scaffold_9	25493378	25500370
Lp0009		DDominant marker	-	-	-	-	-	-		Ciclev10005585m	scaffold_9	30171791	30177202	C_unshiu_00134:mRNA_8.1	C_unshiu_00134	71410	76705	Phosphatase 2C 76 isoform 1			KmG-05S	36.573	JtR-05	12.427
Tf0117			-	-	-	-	-	-		Ciclev10005596m	scaffold_9	15107375	15113804	C_unshiu_00170:mRNA_11.1	C_unshiu_00170	91205	97326	Myb family transcription factor APL	AGI-03	46.274
Cp1115			-	-	-	-	-	-		Ciclev10005600m	scaffold_9	729077	730936
Su0008			-	-	-	-	-	-		Ciclev10005600m	scaffold_9	729077	730936
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
Af1019			-	-	-	-	-	-		Ciclev10005635m	scaffold_9	192512	196670
Cp1607			-	-	-	-	-	-		Ciclev10005637m	scaffold_9	25860665	25863110
Tf0064			-	-	-	-	-	-		Ciclev10005649m	scaffold_9	23409097	23411093
Af1451			-	-	-	-	-	-		Ciclev10005663m	scaffold_9	3961723	3964463
Wy0050	Wy0050.k		-	-	-	-	-	-		Ciclev10005669m	scaffold_9	28556663	28560571
Tf0170			-	-	-	-	-	-		Ciclev10005681m	scaffold_9	31237089	31243866
Tf0022		MDisagree by Marco analysis	O	-	-	-	-	-	SI116	Ciclev10005681m	scaffold_9	31237089	31243866	C_unshiu_00003:mRNA_112.1	C_unshiu_00003	803488	808730	Zinc finger CCCH domain-containing protein 32	AGI-03	78.631
Cp1184			-	-	-	-	-	-		Ciclev10005685m	scaffold_9	17809957	17817998
Af1673			-	-	-	-	-	-		Ciclev10005691m	scaffold_9	29749063	29751434
Af1611			-	-	-	-	-	-		Ciclev10005702m	scaffold_9	22712688	22715627
Af1307			-	-	-	-	-	-		Ciclev10005707m	scaffold_9	5310513	5314498
Af1529			-	-	-	-	-	-		Ciclev10005711m	scaffold_9	21228791	21231253
Af1415			-	-	-	-	-	-		Ciclev10005717m	scaffold_9	2603134	2605405	C_unshiu_00366:mRNA_20.1	C_unshiu_00366	130993	132913	Transmembrane BAX inhibitor motif-containing protein 4	AGI-03	16.667
Lg2003			-	-	-	-	-	-		Ciclev10005717m	scaffold_9	2603134	2605405
Tf0037			-	-	-	-	-	-		Ciclev10005726m	scaffold_9	8466200	8470081
Fb0277			-	-	-	-	-	-		Ciclev10005726m	scaffold_9	8466200	8470081
Af1586			-	-	-	-	-	-		Ciclev10005733m	scaffold_9	23119502	23122347	C_unshiu_00148:mRNA_17.1	C_unshiu_00148	145165	147922	Glycoprotein family protein	AGI-03	63.545
Tf0306			-	-	-	-	-	-		Ciclev10005750m	scaffold_9	26053930	26055086
Cp1924			-	-	-	-	-	-		Ciclev10005766m	scaffold_9	3112679	3115796
Af3218			-	-	-	-	-	-		Ciclev10005768m	scaffold_9	27154799	27158226
Af1348			-	-	-	-	-	-		Ciclev10005778m	scaffold_9	21216748	21221111
Mf0095		OOthers	O	-	-	-	-	-	SI290	Ciclev10005778m	scaffold_9	21216748	21221111	C_unshiu_00160:mRNA_34.1	C_unshiu_00160	290257	294371	Transmembrane proteins 14C, putative isoform 1			KmG-032		JtR-031	11.958			RP-03	43.323
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
Tf0121			-	-	-	-	-	-		Ciclev10005787m	scaffold_9	13223034	13225922
Af1072			-	-	-	-	-	-		Ciclev10005792m	scaffold_9	13545137	13548134
Af1189			-	-	-	-	-	-		Ciclev10005793m	scaffold_9	14837074	14840606
Af1361			-	-	-	-	-	-		Ciclev10005795m	scaffold_9	28903616	28907377
Af1298			-	-	-	-	-	-		Ciclev10005845m	scaffold_9	2037273	2040825
Tf0296			-	-	-	-	-	-		Ciclev10005872m	scaffold_9	5305586	5310022
Af0005			-	-	-	-	-	-		Ciclev10005894m	scaffold_9	2452853	2455181
Al0419		OOthers	O	-	-	-	-	-		Ciclev10005894m	scaffold_9	2452853	2455181	C_unshiu_00394:mRNA_25.1	C_unshiu_00394	150531	152208	Hypothetical protein	AGI-03	17.378	KmG-09	9.593	JtR-09S	7.976
Mf0052			-	-	-	-	-	-		Ciclev10005897m	scaffold_9	28054214	28056032	C_unshiu_01194:mRNA_11.1	C_unshiu_01194	83573	84813	Envelope glycoprotein
Mf0052.2			-	-	-	-	-	-		Ciclev10005897m	scaffold_9	28054214	28056032
Af1547			-	-	-	-	-	-		Ciclev10005907m	scaffold_9	3864764	3867933
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
Gmom26			-	-	-	-	-	-		Ciclev10005911m	scaffold_9	713868	716708	C_unshiu_00007:mRNA_76.1	C_unshiu_00007	473625	476336	Prefoldin subunit 3	AGI-03	10.918
Mf0093			-	-	-	-	-	-		Ciclev10005964m	scaffold_9	22732690	22736939
Ov0320			-	-	-	-	-	-		Ciclev10005968m	scaffold_9	27640074	27641178	C_unshiu_00252:mRNA_13.1	C_unshiu_00252	89281	90198	21 kDa protein									RP-03	56.919
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
Fb0191			-	-	-	-	-	-		Ciclev10005974m	scaffold_9	4119936	4121030
Af1177			-	-	-	-	-	-		Ciclev10005989m	scaffold_9	2168387	2170546	C_unshiu_00085:mRNA_13.1	C_unshiu_00085	78341	80308	CASP-like protein 1E1	AGI-03	18.579
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
Af1383			-	-	-	-	-	-		Ciclev10006002m	scaffold_9	4524401	4525971
Af1255			-	-	-	-	-	-		Ciclev10006003m	scaffold_9	28061221	28063450
Cp1177			-	-	-	-	-	-		Ciclev10006006m	scaffold_9	4116356	4117315
Bf0171			-	-	-	-	-	-	SI381	Ciclev10006006m	scaffold_9	4116356	4117315	C_unshiu_00101:mRNA_25.1	C_unshiu_00101	280469	282533	Early light-induced protein, chloroplastic	AGI-03	52.548
Af1579			-	-	-	-	-	-		Ciclev10006023m	scaffold_9	75348	78181
Af1513			-	-	-	-	-	-		Ciclev10006024m	scaffold_9	29523786	29526379	C_unshiu_00056:mRNA_24.1	C_unshiu_00056	181282	183151	40S ribosomal protein S10	AGI-03	63.545
Af1632			-	-	-	-	-	-		Ciclev10006081m	scaffold_9	900723	902354
Mf0027	Mf0026.2		-	-	-	-	-	-		Ciclev10006081m	scaffold_9	900723	902354
Al0038			-	-	-	-	-	-		Ciclev10006081m	scaffold_9	900723	902354
Af1691			-	-	-	-	-	-		Ciclev10006090m	scaffold_9	627373	629617
Af0012			-	-	-	-	-	-		Ciclev10006108m	scaffold_9	2458793	2459573
Tf0292		OOthers	O	-	-	-	-	-		Ciclev10006112m	scaffold_9	31139789	31143240	C_unshiu_00003:mRNA_98.2	C_unshiu_00003	698480	711976	Protein strawberry notch	AGI-03	77.793
Al0622			-	-	-	-	-	-		Ciclev10006115m	scaffold_9	5152012	5155157
Af1630			-	-	-	-	-	-		Ciclev10006127m	scaffold_9	4702402	4704790
Af1344			-	-	-	-	-	-		Ciclev10006134m	scaffold_9	29408194	29411173
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
Af1456			-	-	-	-	-	-		Ciclev10006136m	scaffold_9	6354796	6356630	C_unshiu_00146:mRNA_22.1	C_unshiu_00146	205279	207014	50S ribosomal protein L28	AGI-03	46.298
Af1169			-	-	-	-	-	-		Ciclev10006148m	scaffold_9	1844420	1846037
Al0328			-	-	-	-	-	-		Ciclev10006155m	scaffold_9	29952005	29956306
Tf0106			-	-	-	-	-	-		Ciclev10006161m	scaffold_9	1128046	1129318	C_unshiu_00007:mRNA_6.1	C_unshiu_00007	49599	50702	GATA transcription factor 15	AGI-03	7.674
Af1131			-	-	-	-	-	-		Ciclev10006197m	scaffold_9	2362829	2365557
Af1449			-	-	-	-	-	-		Ciclev10006216m	scaffold_9	6697572	6699157
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
Af1540			-	-	-	-	-	-		Ciclev10006242m	scaffold_9	477388	478920
Af1583			-	-	-	-	-	-		Ciclev10006246m	scaffold_9	29549722	29551403
Lp0131			-	-	-	-	-	-		Ciclev10006247m	scaffold_9	20390517	20391131
Tf0275		AAvailable marker	O	-	-	-	O	O		Ciclev10006256m	scaffold_9	955176	957425	C_unshiu_00249:mRNA_31.1	C_unshiu_00249	191274	194861	Transposon protein, putative, Mutator sub-class	AGI-03	11.501
Af1179			-	-	-	-	-	-		Ciclev10006271m	scaffold_9	29136067	29137517
Af1316			-	-	-	-	-	-		Ciclev10006289m	scaffold_9	685220	687072
Af1327			-	-	-	-	-	-		Ciclev10006293m	scaffold_9	29498595	29499368
Mf0047		DDominant marker	-	-	-	-	-	-		Ciclev10006308m	scaffold_9	1685407	1687081	C_unshiu_00036:mRNA_24.2	C_unshiu_00036	126753	128428	Late embryogenesis abundant protein Lea5-D	AGI-03	14.323	KmG-031	7.139			NAT-03	50.708
Lp0001			-	-	-	-	-	-		Ciclev10006308m	scaffold_9	1685407	1687081
Mf0063			-	-	-	-	-	-		Ciclev10006352m	scaffold_9	30456144	30458784
Af1244			-	-	-	-	-	-		Ciclev10006361m	scaffold_9	4448167	4450777
Af1017			O	-	-	-	-	-		Ciclev10006402m	scaffold_9	22671554	22672639	No					AGI-03	46.274
Af1534			-	-	-	-	-	-		Ciclev10006429m	scaffold_9	883603	885249
Lp0218			O	-	-	-	-	-		Ciclev10006429m	scaffold_9	883603	885249
Fb0207			-	-	-	-	-	-		Ciclev10006449m	scaffold_9	3771162	3771725	C_unshiu_00254:mRNA_35.1	C_unshiu_00254	237120	239518	Heat shock 22 kDa protein									RP-03	21.444
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
Af1343			-	-	-	-	-	-		Ciclev10006560m	scaffold_9	28035355	28036664
Tf0008			-	-	-	-	-	-		Ciclev10006582m	scaffold_9	29169157	29173419
Af1498			-	-	-	-	-	-		Ciclev10006723m	scaffold_9	6766349	6768025	C_unshiu_00307:mRNA_26.2	C_unshiu_00307	212314	218407	Heterogeneous nuclear ribonucleoprotein 1	AGI-03	46.274
Vt0022			-	-	-	-	-	-		Ciclev10006852m	scaffold_9	24201196	24203794
Af1008			-	-	-	-	-	-		Ciclev10006973m	scaffold_9	2470085	2471703
Tf0334			-	-	-	-	-	-	SI034	Ciclev10007003m	scaffold_9	30983347	30984159	C_unshiu_00003:mRNA_76.2	C_unshiu_00003	557862	561962	Nuclear transcription factor Y subunit C-9
Af1248			-	-	-	-	-	-		Ciclev10007063m	scaffold_9	1638770	1641073
Af1211			-	-	-	-	-	-		Ciclev10007095m	scaffold_9	6226731	6229337
Gn0007.2			-	-	-	-	-	-		Ciclev10007114m	scaffold_9	17778571	17785482
Ov0415			-	-	-	-	-	-		Ciclev10007121m	scaffold_9	2339077	2341173
Ks9010		AAvailable marker	-	-	-	-	O	O		Ciclev10007188m	scaffold_9	29460866	29463385	C_unshiu_00056:mRNA_15.1	C_unshiu_00056	116304	118823	Receptor-like protein kinase HERK 1	AGI-04	62.499	KmG-04	39.019
Fb0237			-	-	-	-	-	-		Ciclev10007227m	scaffold_1	23487200	23497316	C_unshiu_00338:mRNA_20.1	C_unshiu_00338	134033	144369	Hypothetical protein	AGI-01	28.325
Su0002			-	-	-	-	-	-		Ciclev10007245m	scaffold_1	23236312	23242718
Vt0021			-	-	-	-	-	-		Ciclev10007296m	scaffold_1	2015894	2023323
Tf0059			-	-	-	-	-	-	SI101	Ciclev10007297m	scaffold_1	12883722	12897805	C_unshiu_00450:mRNA_3.1	C_unshiu_00450	36956	58462	AGC family Serine/Threonine kinase family protein	AGI-01	56.416
Tf0414			-	-	-	-	-	-		Ciclev10007297m	scaffold_1	12883722	12897805
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
Af1402b			-	-	-	-	-	-		Ciclev10007310m	scaffold_1	3941093	3948163
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
Af2001			-	-	-	-	-	-		Ciclev10007327m	scaffold_1	25337687	25347002
Tf0400			-	-	-	-	-	-		Ciclev10007357m	scaffold_1	928640	936397
Al0426			-	-	-	-	-	-		Ciclev10007391m	scaffold_1	1128897	1137063
Fb0143			-	-	-	-	-	-	SI361	Ciclev10007397m	scaffold_1	25283807	25291472	C_unshiu_00150:mRNA_43.1	C_unshiu_00150	325164	333089	LRR receptor-like serine/threonine-protein kinase ERL1	AGI-01	26.176							RP-01	64.368
Tf0092			-	-	-	-	-	-	SI099	Ciclev10007435m	scaffold_1	3285601	3291534	C_unshiu_00006:mRNA_60.1	C_unshiu_00006	496127	502071	Class III HD-Zip family protein
Gn0011			-	-	-	-	-	-		Ciclev10007488m	scaffold_1	24814539	24819264	C_unshiu_00341:mRNA_12.1	C_unshiu_00341	85182	89905	Sucrose synthase			KmG-01	21.459
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
Lp0113			-	-	-	-	-	-		Ciclev10007510m	scaffold_1	24480591	24484723
Lp0134			-	-	-	-	-	-		Ciclev10007510m	scaffold_1	24480591	24484723
Af1624			-	-	-	-	-	-		Ciclev10007512m	scaffold_1	24924416	24934675
Cp1941			-	-	-	-	-	-		Ciclev10007519m	scaffold_1	25798690	25801889
Af1359			-	-	-	-	-	-		Ciclev10007524m	scaffold_1	25987803	25992258
Lp0237	Lp0237.k		-	-	-	-	-	-		Ciclev10007524m	scaffold_1	25987803	25992258	C_unshiu_00066:mRNA_23.1	C_unshiu_00066	112710	117006	Pyrophosphate-energized vacuolar membrane proton pump	AGI-01	29.815	KmG-01	13.444	JtR-01S	57.629	NAT-01S	8.967
Bf0033			-	-	-	-	-	-	SI356,SI379	Ciclev10007537m	scaffold_1	27204998	27211059	C_unshiu_00347:mRNA_22.1	C_unshiu_00347	166830	172467	NADPH--hemoprotein reductase	AGI-01	32.408							RP-01	85.146
Al0403			-	-	-	-	-	-		Ciclev10007559m	scaffold_1	26802787	26810465
Al0616			-	-	-	-	-	-		Ciclev10007561m	scaffold_1	4343812	4351112
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
Af1234			-	-	-	-	-	-		Ciclev10007572m	scaffold_1	19975332	19979144
Af1078			-	-	-	-	-	-		Ciclev10007573m	scaffold_1	9428841	9434694
Ov0417			-	-	-	-	-	-		Ciclev10007609m	scaffold_1	851900	857695
Al0216			-	-	-	-	-	-		Ciclev10007632m	scaffold_1	7359982	7369305
Af1535			-	-	-	-	-	-		Ciclev10007633m	scaffold_1	23814115	23817728
Vt0012			-	-	-	-	-	-		Ciclev10007708m	scaffold_1	1806179	1809814
Al0603			-	-	-	-	-	-		Ciclev10007714m	scaffold_1	13325813	13336158
Tf0124			-	-	-	-	-	-		Ciclev10007717m	scaffold_1	27457358	27462893	C_unshiu_00237:mRNA_37.1	C_unshiu_00237	259818	273281	Dethiobiotin synthase	AGI-01	34.062
Af1461			-	-	-	-	-	-		Ciclev10007728m	scaffold_1	2851521	2854493
Cp1935			-	-	-	-	-	-		Ciclev10007732m	scaffold_1	5518821	5522727
Cp0672			-	-	-	-	-	-		Ciclev10007769m	scaffold_1	28262202	28267878	C_unshiu_00005:mRNA_26.1	C_unshiu_00005	170218	174432	Putative eukaryotic translation initiation factor 4 gamma	AGI-01	101.472
Wy0028		AAvailable marker	-	-	-	-	O	O		Ciclev10007806m	scaffold_1	25001341	25004726	C_unshiu_00150:mRNA_3.1	C_unshiu_00150	18652	22079	Probable pectinesterase/pectinesterase inhibitor 61	AGI-01	26.171	KmG-01
Tf0193			-	-	-	-	-	-		Ciclev10007849m	scaffold_1	27167271	27171073
Cp2210		AAvailable marker	-	-	-	-	-	O		Ciclev10007886m	scaffold_1	8125279	8130885	C_unshiu_00744:mRNA_3.1	C_unshiu_00744	19836	25320	6-phosphofructokinase isoform 1
Af3188			-	-	-	-	-	-		Ciclev10007898m	scaffold_1	448785	452457
Cp0632		AAvailable marker	O	-	-	-	O	O		Ciclev10007941m	scaffold_1	27698934	27703620	C_unshiu_00237:mRNA_7.1	C_unshiu_00237	40930	45531	Protein translocase subunit SecY	AGI-08	56.724
Cp2158		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10007944m	scaffold_1	22847397	22852110	C_unshiu_00103:mRNA_47.1	C_unshiu_00103	254015	258614	Trigger factor type chaperone family protein	AGI-01	24.422
Af1364			-	-	-	-	-	-		Ciclev10007962m	scaffold_1	26026278	26032641
Af1637			-	-	-	-	-	-		Ciclev10008007m	scaffold_1	18896164	18901623
Cp1666			-	-	-	-	-	-		Ciclev10008009m	scaffold_1	1149150	1151996
Fb0478			-	-	-	-	-	-		Ciclev10008010m	scaffold_1	14592248	14596429	C_unshiu_00071:mRNA_18.1	C_unshiu_00071	196512	200666	Beta-glucosidase 44	AGI-01	61.025
Af1369			-	-	-	-	-	-		Ciclev10008015m	scaffold_1	2551920	2555129
Lp0130			-	-	-	-	-	-		Ciclev10008029m	scaffold_1	11512415	11514434
Cp1644			-	-	-	-	-	-		Ciclev10008029m	scaffold_1	11512415	11514434
Cp0475			-	-	-	-	-	-		Ciclev10008029m	scaffold_1	11512415	11514434
Gmom31			-	-	-	-	-	-		Ciclev10008052m	scaffold_1	27783419	27789937
Cp0277			-	-	-	-	-	-		Ciclev10008086m	scaffold_1	7776970	7783395
Al0220			-	-	-	-	-	-		Ciclev10008097m	scaffold_1	3683537	3688814
Tf0077			O	-	-	-	-	-	SI135	Ciclev10008135m	scaffold_1	28433972	28437921	C_unshiu_00590:mRNA_15.1	C_unshiu_00590	86430	90131	WRKY	AGI-01	34.814
Af1070			O	-	-	-	-	-		Ciclev10008140m	scaffold_1	17308566	17311235
Bf0025			-	-	-	-	-	-		Ciclev10008159m	scaffold_1	7402730	7407596
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
Al0510			-	-	-	-	-	-		Ciclev10008176m	scaffold_1	22792920	22795069
Af2042			-	-	-	-	-	-		Ciclev10008181m	scaffold_1	3521485	3525524
Af1146			-	-	-	-	-	-		Ciclev10008189m	scaffold_1	22593671	22599178
Tf0211			-	-	-	-	-	-		Ciclev10008192m	scaffold_1	28607325	28610917
Af1071			-	-	-	-	-	-		Ciclev10008192m	scaffold_1	28607325	28610917
Tf0389			-	-	-	-	-	-		Ciclev10008192m	scaffold_1	28607325	28610917
Af1300			-	-	-	-	-	-		Ciclev10008203m	scaffold_1	8539647	8542949
Tf0230			-	-	-	-	-	-	SI140	Ciclev10008206m	scaffold_1	23463843	23470911	C_unshiu_00338:mRNA_22.1	C_unshiu_00338	163174	169978	NAD-dependent protein deacetylase SRT1
Tf0406		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10008206m	scaffold_1	23463843	23470911	C_unshiu_00338:mRNA_22.1	C_unshiu_00338	163174	169978	NAD-dependent protein deacetylase SRT1	AGI-01	28.515
Ks9001			-	-	-	-	-	-		Ciclev10008207m	scaffold_1	24548109	24552107	C_unshiu_00047:mRNA_72.1	C_unshiu_00047	475125	488565	Inter-alpha-trypsin inhibitor heavy chain-related isoform 1	AGI-01	27.192			JtR-01S	61.287
Af1565			-	-	-	-	-	-		Ciclev10008210m	scaffold_1	21875022	21879839
Al0014			O	-	-	-	-	-	SI058,SI153,SI312	Ciclev10008225m	scaffold_1	1070373	1072218	C_unshiu_00005:mRNA_43.1	C_unshiu_00005	281165	283012	CBL-interacting serine/threonine-protein kinase 20	AGI-01	97.525							RP-01	3.295
Af1241			-	-	-	-	-	-		Ciclev10008227m	scaffold_1	1401842	1406346
Cp0741		AAvailable marker	O	-	-	-	O	O		Ciclev10008230m	scaffold_1	3746864	3749903	C_unshiu_00055:mRNA_22.1	C_unshiu_00055	168281	172005	Ferrochelatase	AGI-01	75.964
Af1256			-	-	-	-	-	-		Ciclev10008233m	scaffold_1	940514	942972
Fb0103		OOthers	O	-	-	-	-	-	SI155	Ciclev10008255m	scaffold_1	22758712	22761740	C_unshiu_00103:mRNA_27.1	C_unshiu_00103	160138	163082	GDP-L-galactose phosphorylase	AGI-01	30.703			JtR-01S	6.418
Af1171			-	-	-	-	-	-		Ciclev10008298m	scaffold_1	275263	280936
Al0204			-	-	-	-	-	-		Ciclev10008298m	scaffold_1	275263	280936	C_unshiu_00003:mRNA_150.2	C_unshiu_00003	1127884	1133567	Myosin heavy chain-like protein					JtR-09S	5.527
Lp0114			-	-	-	-	-	-		Ciclev10008315m	scaffold_1	28623624	28626008
Cp2176			-	-	-	-	-	-		Ciclev10008323m	scaffold_1	27640636	27648110
Cp2180			-	-	-	-	-	-		Ciclev10008335m	scaffold_1	28385660	28388620
Tf0305			-	-	-	-	-	-		Ciclev10008366m	scaffold_1	27554897	27556656
Sd0005			-	-	-	-	-	-		Ciclev10008384m	scaffold_1	2344790	2346942
Fb0722			-	-	-	-	-	-		Ciclev10008390m	scaffold_1	16098039	16100795
Gn0069		ULess informative for main cultivars	O	-	-	-	-	-	SI086,SI375	Ciclev10008410m	scaffold_1	10946316	10949617	C_unshiu_00201:mRNA_19.1	C_unshiu_00201	212151	227232	Lycopene epsilon cyclase	AGI-01	57.863
Cp0045			-	-	-	-	-	-		Ciclev10008435m	scaffold_1	5194085	5198860
Al0257	Al0257.k		-	-	-	-	-	-		Ciclev10008444m	scaffold_1	22407412	22409529
Af1084			-	-	-	-	-	-		Ciclev10008467m	scaffold_1	25716862	25720071	C_unshiu_00066:mRNA_57.1	C_unshiu_00066	369928	382143	Hypothetical protein	AGI-01	24.643
Tf0176			-	-	-	-	-	-		Ciclev10008476m	scaffold_1	385469	388179	C_unshiu_00003:mRNA_163.1	C_unshiu_00003	1226924	1232429	Hypothetical protein									RP-01
Tf0177			-	-	-	-	-	-	SI133	Ciclev10008476m	scaffold_1	385469	388179	C_unshiu_00003:mRNA_163.1	C_unshiu_00003	1226924	1232429	Hypothetical protein
Af3288			-	-	-	-	-	-		Ciclev10008476m	scaffold_1	385469	388179
Af1360			-	-	-	-	-	-		Ciclev10008482m	scaffold_1	3061549	3065503
Al0334			-	-	-	-	-	-		Ciclev10008488m	scaffold_1	18113949	18117209
Af1551			-	-	-	-	-	-		Ciclev10008489m	scaffold_1	6494973	6502196
Ov0115			-	-	-	-	-	-		Ciclev10008504m	scaffold_1	13063201	13068419
Bf0013			O	-	-	-	-	-		Ciclev10008507m	scaffold_1	23111733	23116067	No					AGI-01								RP-01	47.360
Cp0016			-	-	-	-	-	-		Ciclev10008520m	scaffold_1	18117264	18119451
Af1622			-	-	-	-	-	-		Ciclev10008520m	scaffold_1	18117264	18119451	C_unshiu_00187:mRNA_23.3	C_unshiu_00187	141733	143877	Protochlorophyllide reductase, chloroplastic	AGI-01	54.754
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
Fb0275			O	-	-	-	-	-		Ciclev10008562m	scaffold_1	15883118	15887517	C_unshiu_00288:mRNA_9.1	C_unshiu_00288	55910	60461	Malate dehydrogenase	AGI-01	55.687
Fb0225			-	-	-	-	-	-		Ciclev10008570m	scaffold_1	4873970	4878979	C_unshiu_00039:mRNA_6.1	C_unshiu_00039	54980	59746	Protein arginine N-methyltransferase 1									RP-05	33.168
Bf0022			-	-	-	-	-	-		Ciclev10008584m	scaffold_1	6628388	6634237
Gmom08			-	-	-	-	-	-		Ciclev10008617m	scaffold_1	4143948	4146608
Gmom09			-	-	-	-	-	-		Ciclev10008617m	scaffold_1	4143948	4146608
Tf0118			-	-	-	-	-	-		Ciclev10008617m	scaffold_1	4143948	4146608
Tf0245			-	-	-	-	-	-	SI021	Ciclev10008628m	scaffold_1	18298599	18300295	C_unshiu_00548:mRNA_21.1	C_unshiu_00548	168151	169460	Hypothetical protein
Al0526	Al0526.em		-	-	-	-	-	-		Ciclev10008628m	scaffold_1	18298599	18300295
Tf0359			-	-	-	-	-	-		Ciclev10008628m	scaffold_1	18298599	18300295
Al0209		HDisagree on Clementine haploid genotype	-	-	-	-	-	-		Ciclev10008628m	scaffold_1	18298599	18300295	C_unshiu_00548:mRNA_21.1	C_unshiu_00548	168151	169460	Hypothetical protein			KmG-01	37.230	JtR-01S	88.382
Af1467			-	-	-	-	-	-		Ciclev10008651m	scaffold_1	24171632	24175378	C_unshiu_00047:mRNA_19.1	C_unshiu_00047	116658	120038	Putative amino acid permease 7	AGI-01	29.784
Af1695			-	-	-	-	-	-		Ciclev10008653m	scaffold_1	24619126	24621953
Tf0033			-	-	-	-	-	-		Ciclev10008659m	scaffold_1	26872071	26875269
Tf0033.2			-	-	-	-	-	-		Ciclev10008659m	scaffold_1	26872071	26875269
Af1142			-	-	-	-	-	-		Ciclev10008681m	scaffold_1	487184	489198
Al0630		AAvailable marker	O	-	-	-	-	O		Ciclev10008681m	scaffold_1	487184	489198	C_unshiu_00129:mRNA_38.1	C_unshiu_00129	342865	344872	Kelch repeat-containing F-box family protein									RP-01	1.092
Lp0204			-	-	-	-	-	-		Ciclev10008687m	scaffold_1	24523400	24526186
Al0631			-	-	-	-	-	-		Ciclev10008689m	scaffold_1	20096297	20101958
Mf0074			-	-	-	-	-	-		Ciclev10008734m	scaffold_1	6617921	6622625
Cp2073			-	-	-	-	-	-		Ciclev10008749m	scaffold_1	26872500	26875269
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
Af2318			-	-	-	-	-	-		Ciclev10008753m	scaffold_1	25227978	25233897
Cp1614			-	-	-	-	-	-		Ciclev10008763m	scaffold_1	23876791	23880665
Al0522			-	-	-	-	-	-		Ciclev10008765m	scaffold_1	21082902	21086082
Bf0026			-	-	-	-	-	-		Ciclev10008765m	scaffold_1	21082902	21086082	C_unshiu_00487:mRNA_12.1	C_unshiu_00487	113166	115416	Thiazole biosynthetic enzyme	AGI-01	43.164							RP-01	56.137
Tf0263			-	-	-	-	-	-	SI013	Ciclev10008768m	scaffold_1	6358030	6359568	C_unshiu_00075:mRNA_22.1	C_unshiu_00075	227733	229211	Heat shock transcription factor A7a1
Af1407			-	-	-	-	-	-		Ciclev10008782m	scaffold_1	28220637	28224080
Af1531			-	-	-	-	-	-		Ciclev10008796m	scaffold_1	4984340	4987674
Tf0233			-	-	-	-	-	-		Ciclev10008804m	scaffold_1	6772264	6775904
Wy0057	Wy0057.em		-	-	-	-	-	-		Ciclev10008812m	scaffold_1	18270818	18273015
Tf0066			-	-	-	-	-	-	SI221	Ciclev10008812m	scaffold_1	18270818	18273015	C_unshiu_00187:mRNA_34.1	C_unshiu_00187	287391	289585	NAC domain-containing protein 72	AGI-01	58.420
Tf0102			-	-	-	-	-	-		Ciclev10008813m	scaffold_1	734373	736031
Af1350			-	-	-	-	-	-		Ciclev10008817m	scaffold_1	25017748	25021583
Af1120			-	-	-	-	-	-		Ciclev10008829m	scaffold_1	11232482	11237918
Tf0226		AAvailable marker	O	-	-	-	-	O		Ciclev10008836m	scaffold_1	526813	529150	C_unshiu_00129:mRNA_32.1	C_unshiu_00129	303106	311407	Exocyst subunit EXO70 family protein									RP-01	1.100
Tf0407			-	-	-	-	-	-		Ciclev10008836m	scaffold_1	526813	529150
Mf0067		OOthers	-	-	-	-	-	-		Ciclev10008855m	scaffold_1	7264569	7269002	C_unshiu_00837:mRNA_9.1	C_unshiu_00837	91807	96079	Protein phosphatase 1 regulatory subunit pprA			KmG-032	18.460	JtR-031	13.247
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
Tf0222			-	-	-	-	-	-		Ciclev10008882m	scaffold_1	28782169	28786731
Tf0291			-	-	-	-	-	-		Ciclev10008882m	scaffold_1	28782169	28786731
Bf0011		AAvailable marker	O	-	-	-	O	O	SI218	Ciclev10008900m	scaffold_1	4722889	4726339	C_unshiu_00547:mRNA_9.1	C_unshiu_00547	54556	57654	NADH-cytochrome b5 reductase	AGI-01	67.331							RP-01	23.653
Mf0007		ULess informative for main cultivars	-	-	-	-	-	-		Ciclev10008907m	scaffold_1	17471330	17472833	C_unshiu_00044:mRNA_52.1	C_unshiu_00044	424343	425685	NADPH-dependent codeinone reductase-like protein
Lp0138			-	-	-	-	-	-		Ciclev10008908m	scaffold_1	2599957	2603377
Cp1931			-	-	-	-	-	-		Ciclev10008910m	scaffold_1	5353694	5358135
Tf0049			-	-	-	-	-	-	SI328	Ciclev10008919m	scaffold_1	24273993	24277800	C_unshiu_00047:mRNA_33.1	C_unshiu_00047	212549	221653	WD domain protein-like	AGI-01	26.841
Af1004			-	-	-	-	-	-		Ciclev10008926m	scaffold_1	24426760	24434342
Af1392			-	-	-	-	-	-		Ciclev10008930m	scaffold_1	1051155	1052947
Lp0205			-	-	-	-	-	-		Ciclev10008932m	scaffold_1	4541676	4543982
Af1424			-	-	-	-	-	-		Ciclev10008953m	scaffold_1	18688873	18690138	C_unshiu_00137:mRNA_44.1	C_unshiu_00137	354434	355481	CFE protein	AGI-01	43.613
Tf0274			-	-	-	-	-	-		Ciclev10008979m	scaffold_1	24354877	24358736
Vt0013			-	-	-	-	-	-		Ciclev10008981m	scaffold_1	13123280	13126173
Af3599			-	-	-	-	-	-		Ciclev10008985m	scaffold_1	28330810	28332669
Af1512			-	-	-	-	-	-		Ciclev10008994m	scaffold_1	9300782	9304559
Af1883			-	-	-	-	-	-		Ciclev10008999m	scaffold_1	25255758	25259340
Mf0062			-	-	-	-	-	-		Ciclev10009010m	scaffold_1	26773396	26776856
Af1370			-	-	-	-	-	-		Ciclev10009015m	scaffold_1	8822834	8826308	C_unshiu_00579:mRNA_6.1	C_unshiu_00579	46507	50108	Plasma membrane	AGI-01	56.590
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
Tf0058			-	-	-	-	-	-	SI257	Ciclev10009065m	scaffold_1	20885102	20889283	C_unshiu_00395:mRNA_8.2	C_unshiu_00395	50978	54866	Fertilization-independent endosperm protein	AGI-01	46.623
Cp0427			-	-	-	-	-	-		Ciclev10009075m	scaffold_1	738477	743395
Af1413			-	-	-	-	-	-		Ciclev10009114m	scaffold_1	4522022	4524821
Cp0699			-	-	-	-	-	-		Ciclev10009114m	scaffold_1	4522022	4524821
Af1181			-	-	-	-	-	-		Ciclev10009123m	scaffold_1	8063530	8066056
Ov0518			-	-	-	-	-	-		Ciclev10009133m	scaffold_1	17185032	17187893
Af1107			-	-	-	-	-	-		Ciclev10009146m	scaffold_1	4606912	4610637
Af1197			-	-	-	-	-	-		Ciclev10009151m	scaffold_1	16467942	16471056
Af1503			-	-	-	-	-	-		Ciclev10009155m	scaffold_1	27943663	27947071
Tf0449		OOthers	O	-	-	-	-	-		Ciclev10009165m	scaffold_1	28254307	28257305	C_unshiu_01997:mRNA_4.1	C_unshiu_01997	32539	35330	Translation initiation factor IF-3	AGI-01	0.404
Af1372			-	-	-	-	-	-		Ciclev10009165m	scaffold_1	28254307	28257305
Tf0161			-	-	-	-	-	-		Ciclev10009165m	scaffold_1	28254307	28257305
Af1444			-	-	-	-	-	-		Ciclev10009174m	scaffold_1	3665141	3672863
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
Af1481			-	-	-	-	-	-		Ciclev10009202m	scaffold_1	1797060	1800274
Af1173			-	-	-	-	-	-		Ciclev10009205m	scaffold_1	24591598	24593689
Tf0327			-	-	-	-	-	-		Ciclev10009213m	scaffold_1	19056291	19058412
Al0513		OOthers	-	-	-	-	-	-		Ciclev10009222m	scaffold_1	8046181	8049306	C_unshiu_00191:mRNA_21.1	C_unshiu_00191	243988	246458	Stem 28 kDa glycoprotein	AGI-01	60.031	KmG-01	41.591
Af1108			-	-	-	-	-	-		Ciclev10009222m	scaffold_1	8046181	8049306
Cp0067			O	-	-	-	-	-		Ciclev10009235m	scaffold_1	20056926	20059223
Af1476			-	-	-	-	-	-		Ciclev10009256m	scaffold_1	3862913	3866838
Af3215			-	-	-	-	-	-		Ciclev10009264m	scaffold_1	25322078	25323384
Tf0307		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10009286m	scaffold_1	25395688	25397278	C_unshiu_00442:mRNA_24.1	C_unshiu_00442	209015	209831	Myb domain protein 5	AGI-01	23.266
Al0407		AAvailable marker	O	-	-	-	O	O		Ciclev10009315m	scaffold_1	26576059	26578193	C_unshiu_00131:mRNA_17.1	C_unshiu_00131	121152	123183	60S ribosomal protein L7	AGI-01	31.240	KmG-01	15.673	JtR-01S	57.666			RP-01	79.425
If0008		AAvailable marker	-	-	-	-	-	O		Ciclev10009315m	scaffold_1	26576059	26578193	No							KmG-01	15.635	JtR-01S	57.666
Cp1938			-	-	-	-	-	-		Ciclev10009324m	scaffold_1	329071	331103
Af1406			-	-	-	-	-	-		Ciclev10009324m	scaffold_1	329071	331103
Af1157			-	-	-	-	-	-		Ciclev10009325m	scaffold_1	1234555	1235706
Al0523			-	-	-	-	-	-		Ciclev10009349m	scaffold_1	177116	180417
Af1752			-	-	-	-	-	-		Ciclev10009349m	scaffold_1	177116	180417
Tf0247			-	-	-	-	-	-		Ciclev10009354m	scaffold_1	20550792	20553673
Tf0041			-	-	-	-	-	-		Ciclev10009354m	scaffold_1	20550792	20553673
Af1303			-	-	-	-	-	-		Ciclev10009361m	scaffold_1	22810929	22812161
Bf0141			-	-	-	-	-	-		Ciclev10009364m	scaffold_1	22893476	22896534
Af1274			-	-	-	-	-	-		Ciclev10009370m	scaffold_1	3152548	3153983
Af1269			-	-	-	-	-	-		Ciclev10009375m	scaffold_1	27043124	27045483
Al0330			-	-	-	-	-	-		Ciclev10009377m	scaffold_1	7455492	7457451
Af1554			-	-	-	-	-	-		Ciclev10009386m	scaffold_1	23753759	23756754	C_unshiu_00080:mRNA_59.1	C_unshiu_00080	491826	492778	Protein CWC15	AGI-01	28.775
Al0235			-	-	-	-	-	-		Ciclev10009395m	scaffold_1	25761570	25764926
Ov0319			-	-	-	-	-	-		Ciclev10009395m	scaffold_1	25761570	25764926	C_unshiu_00066:mRNA_53.1	C_unshiu_00066	333477	336681	Ubiquitin system component Cue protein			KmG-032	19.158
Af1094			-	-	-	-	-	-		Ciclev10009395m	scaffold_1	25761570	25764926	C_unshiu_00066:mRNA_53.1	C_unshiu_00066	333477	336681	Ubiquitin system component Cue protein	AGI-01	30.175
Cp1998		AAvailable marker	-	-	-	-	-	O		Ciclev10009395m	scaffold_1	25761570	25764926	C_unshiu_00066:mRNA_53.1	C_unshiu_00066	333477	336681	Ubiquitin system component Cue protein
Cp2193			-	-	-	-	-	-		Ciclev10009415m	scaffold_1	22999424	23001838
Ov0427			-	-	-	-	-	-		Ciclev10009427m	scaffold_1	2156679	2158871	C_unshiu_00553:mRNA_14.1	C_unshiu_00553	110847	134434	Hypothetical protein			KmG-05S	36.268
Ov0428	Ov0427.2		-	-	-	-	-	-		Ciclev10009427m	scaffold_1	2156679	2158871
Cp1670			-	-	-	-	-	-		Ciclev10009435m	scaffold_1	1709131	1710064
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
Lp0227			-	-	-	-	-	-		Ciclev10009468m	scaffold_1	28429428	28433154
Vs0017			-	-	-	-	-	-		Ciclev10009470m	scaffold_1	6647158	6649599
Af1137			-	-	-	-	-	-		Ciclev10009474m	scaffold_1	2038681	2041094
Tf0255			-	-	-	-	-	-		Ciclev10009486m	scaffold_1	22111808	22116666
Cp0671		AAvailable marker	-	-	-	-	O	O		Ciclev10009489m	scaffold_1	28353948	28356507	C_unshiu_00590:mRNA_26.1	C_unshiu_00590	165626	168046	UPF0133 protein	AGI-01	36.113
Af1459			-	-	-	-	-	-		Ciclev10009503m	scaffold_1	12972605	12977393
Af1278			-	-	-	-	-	-		Ciclev10009508m	scaffold_1	6903804	6908960
Af1065			-	-	-	-	-	-		Ciclev10009538m	scaffold_1	11008759	11012720
Lp0025			-	-	-	-	-	-		Ciclev10009567m	scaffold_1	25816949	25818472
Lp0211			O	-	-	-	-	-		Ciclev10009567m	scaffold_1	25816949	25818472	C_unshiu_00066:mRNA_48.1	C_unshiu_00066	279404	280861	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein isoform 1	AGI-01	30.175							RP-01	24.533
Af1079			-	-	-	-	-	-		Ciclev10009570m	scaffold_1	3255140	3258139
Af1262			-	-	-	-	-	-		Ciclev10009571m	scaffold_1	28424576	28427136
Cp2154			-	-	-	-	-	-	SI164	Ciclev10009584m	scaffold_1	20462860	20465557	C_unshiu_00670:mRNA_8.1	C_unshiu_00670	44502	47121	50S ribosomal protein L24, chloroplastic
Al0314			-	-	-	-	-	-		Ciclev10009591m	scaffold_1	2574769	2577568
Af1123			-	-	-	-	-	-		Ciclev10009597m	scaffold_1	1687894	1690412
Af1533			-	-	-	-	-	-		Ciclev10009600m	scaffold_1	22118203	22120791
Mf0045			-	-	-	-	-	-		Ciclev10009632m	scaffold_1	22844241	22846485
Mf0046			-	-	-	-	-	-		Ciclev10009632m	scaffold_1	22844241	22846485
Cp1093			-	-	-	-	-	-		Ciclev10009636m	scaffold_1	16696979	16699623
Af1561			-	-	-	-	-	-		Ciclev10009643m	scaffold_1	2420324	2423040
Lp0230			O	-	-	-	-	-		Ciclev10009651m	scaffold_1	20094575	20097443
Af1311			-	-	-	-	-	-		Ciclev10009720m	scaffold_1	2025698	2028188
Tf0341			-	-	-	-	-	-		Ciclev10009720m	scaffold_1	2025698	2028188
Af1478			-	-	-	-	-	-		Ciclev10009725m	scaffold_1	4534161	4535260
Af1175			-	-	-	-	-	-		Ciclev10009729m	scaffold_1	3647539	3651252
Af1353			-	-	-	-	-	-		Ciclev10009740m	scaffold_1	14026557	14027565
Gn0042			-	-	-	-	-	-		Ciclev10009742m	scaffold_1	25370176	25371445	C_unshiu_00498:mRNA_21.1	C_unshiu_00498	140388	142383	Deficiens					JtR-08	6.490
Af1321			-	-	-	-	-	-		Ciclev10009751m	scaffold_1	16371168	16375666	C_unshiu_00108:mRNA_25.1	C_unshiu_00108	320409	344557	Hypothetical protein	AGI-06	34.500
Mf0025			-	-	-	-	-	-		Ciclev10009756m	scaffold_1	25592494	25593617
Mf0086		AAvailable marker	O	-	-	-	O	O	SI220,SI315	Ciclev10009756m	scaffold_1	25592494	25593617	C_unshiu_00066:mRNA_75.1	C_unshiu_00066	500992	501833	17.9 kDa class II heat shock protein	AGI-01	26.428	KmG-01	19.692	JtR-01S	57.666			RP-01	69.936
Gmom12			-	-	-	-	-	-		Ciclev10009761m	scaffold_1	25604509	25605857
Lp0110			-	-	-	-	-	-		Ciclev10009769m	scaffold_1	24271753	24272644
Ov0110			-	-	-	-	-	-		Ciclev10009770m	scaffold_1	22118203	22120791
Af1537			-	-	-	-	-	-		Ciclev10009797m	scaffold_1	8417158	8419377
Ov0026	Ov0026.k		-	-	-	-	-	-		Ciclev10009797m	scaffold_1	8417158	8419377
Ov0027	Ov0027.em		-	-	-	-	-	-		Ciclev10009797m	scaffold_1	8417158	8419377	C_unshiu_00584:mRNA_9.1	C_unshiu_00584	74089	76266	60S ribosomal protein L28	AGI-03	51.749
Af1223			-	-	-	-	-	-		Ciclev10009839m	scaffold_1	27111412	27114276	C_unshiu_00347:mRNA_8.1	C_unshiu_00347	66555	79401	Flavin-binding kelch domain F box protein	AGI-09	97.668
Bf0417			-	-	-	-	-	-		Ciclev10009842m	scaffold_1	693215	695933
Cp0716			-	-	-	-	-	-		Ciclev10009855m	scaffold_1	5435165	5436509
Af1032			O	-	-	-	-	-		Ciclev10009868m	scaffold_1	8377489	8379348
Af1528			-	-	-	-	-	-		Ciclev10009892m	scaffold_1	1676368	1677018
Af1218			-	-	-	-	-	-		Ciclev10009894m	scaffold_1	26237405	26239791
Af1570			-	-	-	-	-	-		Ciclev10009899m	scaffold_1	4601588	4603705
If0214			-	-	-	-	-	-		Ciclev10009906m	scaffold_1	21464732	21466099
Al0027			-	-	-	-	-	-		Ciclev10009909m	scaffold_1	24787600	24788444
Af1549			-	-	-	-	-	-		Ciclev10009920m	scaffold_1	2184513	2186967
Af1356			-	-	-	-	-	-		Ciclev10009976m	scaffold_1	22837500	22839817
Af1213			-	-	-	-	-	-		Ciclev10010027m	scaffold_1	2821922	2823925
Mf0006			-	-	-	-	-	-		Ciclev10010036m	scaffold_1	17554790	17556053
Mf0033		AAvailable marker	-	-	-	-	O	O		Ciclev10010044m	scaffold_1	6227617	6228389	C_unshiu_00075:mRNA_11.1	C_unshiu_00075	123779	124531	Hypothetical protein	AGI-01	62.570	KmG-01	46.353	JtR-01S	106.811	NAT-01S	77.905
Mf0050			-	-	-	-	-	-		Ciclev10010044m	scaffold_1	6227617	6228389
Vt0006			-	-	-	-	-	-		Ciclev10010149m	scaffold_1	24914885	24923422
Af2143			-	-	-	-	-	-		Ciclev10010213m	scaffold_1	149283	154945
Af1571			-	-	-	-	-	-		Ciclev10010323m	scaffold_1	24533064	24536628
Tf0163		AAvailable marker	O	-	-	-	O	O		Ciclev10010423m	scaffold_1	26740822	26744016	C_unshiu_00105:mRNA_35.1	C_unshiu_00105	316978	320206	RING/FYVE/PHD zinc finger superfamily protein, putative isoform 1	AGI-01	31.240
Af1081			-	-	-	-	-	-		Ciclev10010514m	scaffold_1	5650217	5655629
Cp1852			-	-	-	-	-	-		Ciclev10010530m	scaffold_1	22711668	22715696	C_unshiu_00103:mRNA_19.2	C_unshiu_00103	116559	121057	Cell differentiation protein rcd1	AGI-02	9.592
Af1285			-	-	-	-	-	-		Ciclev10010796m	scaffold_1	12807597	12808725
Tf0175			-	-	-	-	-	-		Ciclev10010825m	scaffold_1	5054551	5056146
Bf1207			-	-	-	-	-	-		Ciclev10010835m	scaffold_1	22912695	22913798	C_unshiu_00103:mRNA_59.1	C_unshiu_00103	319187	320041	Hypothetical protein	AGI-01
Wy0026		HDisagree on Clementine haploid genotype	-	-	-	-	-	-		Ciclev10010857m	scaffold_1	28321342	28323314	C_unshiu_02224:mRNA_5.1	C_unshiu_02224	30176	31684	Hydroxycinnamoyl-CoA shikimate/quinate hydroxycinnamoyl transferase	AGI-01	35.518
Gn0084		DDominant marker	-	-	-	-	-	-		Ciclev10010857m	scaffold_1	28321342	28323314
Tf0254		Bno homozygous cultivar with minor allele	O	-	-	-	-	-		Ciclev10010885m	scaffold_6	23916876	23939827	C_unshiu_00253:mRNA_3.1	C_unshiu_00253	14647	20586	Hypothetical protein	AGI-04	38.226
Ov0117		AAvailable marker	O	-	-	-	O	O	SI040	Ciclev10010926m	scaffold_6	19105139	19113780	C_unshiu_00089:mRNA_17.1	C_unshiu_00089	153791	161685	Hypothetical protein	AGI-04	66.455							RP-04	28.160
Fb0224			-	-	-	-	-	-		Ciclev10010929m	scaffold_6	541527	549660
Af1510			-	-	-	-	-	-		Ciclev10010950m	scaffold_6	16871274	16876833
Tf0075			-	-	-	-	-	-	SI059,SI248	Ciclev10010972m	scaffold_6	19142307	19156510	C_unshiu_00089:mRNA_11.1	C_unshiu_00089	108874	122025	Homoserine kinase	AGI-04	66.455
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
Cp1887		MDisagree by Marco analysis	-	-	-	-	-	-		Ciclev10010991m	scaffold_6	25193617	25201413	C_unshiu_00009:mRNA_34.1	C_unshiu_00009	183041	190334	ATP-dependent chaperone ClpB
Wy0048	Wy0048.k		-	-	-	-	-	-		Ciclev10010999m	scaffold_6	19900235	19904192	C_unshiu_00043:mRNA_54.1	C_unshiu_00043	424252	427984	Putative receptor protein kinase TMK1	AGI-04	63.371					NAT-04	21.157
Tf0080			-	-	-	-	-	-		Ciclev10011039m	scaffold_6	17611201	17617794
Af1240			-	-	-	-	-	-		Ciclev10011152m	scaffold_6	23748847	23753978
Tf0451			-	-	-	-	-	-		Ciclev10011164m	scaffold_6	14694513	14700102
Tf0181			-	-	-	-	-	-		Ciclev10011164m	scaffold_6	14694513	14700102
Tf0021		AAvailable marker	-	-	-	-	-	O		Ciclev10011169m	scaffold_6	21905557	21908832	C_unshiu_00079:mRNA_39.1	C_unshiu_00079	273228	275864	BZIP transcription factor family protein
Af1499			-	-	-	-	-	-		Ciclev10011169m	scaffold_6	21905557	21908832	C_unshiu_00079:mRNA_39.1	C_unshiu_00079	273228	275864	BZIP transcription factor family protein	AGI-04
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
Al0644			-	-	-	-	-	-		Ciclev10011184m	scaffold_6	25237872	25242427
Tf0073			-	-	-	-	-	-		Ciclev10011201m	scaffold_6	19840881	19844299
Em0003			-	-	-	-	-	-		Ciclev10011201m	scaffold_6	19840881	19844299	C_unshiu_00043:mRNA_48.1	C_unshiu_00043	360776	363775	BEL1-like homeodomain protein 1	AGI-08	56.724
Tf0416			-	-	-	-	-	-		Ciclev10011201m	scaffold_6	19840881	19844299
Gn0066.2		HDisagree on Clementine haploid genotype	O	-	-	-	-	-		Ciclev10011230m	scaffold_6	19578179	19583475	C_unshiu_00043:mRNA_12.1	C_unshiu_00043	90212	94791	Carotenoid isomerase	AGI-04
Af1457			-	-	-	-	-	-		Ciclev10011230m	scaffold_6	19578179	19583475
Cp0839			-	-	-	-	-	-		Ciclev10011239m	scaffold_6	15703559	15706187
Ov0411			-	-	-	-	-	-		Ciclev10011259m	scaffold_6	23410636	23414246
Af1093			-	-	-	-	-	-		Ciclev10011263m	scaffold_6	19055518	19058726
Tf0364		AAvailable marker	O	-	-	-	O	O		Ciclev10011266m	scaffold_6	24606501	24612654	C_unshiu_00135:mRNA_49.1	C_unshiu_00135	338118	344273	FACT complex subunit SSRP1	AGI-04	37.102
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
Cp1771			-	-	-	-	-	-		Ciclev10011285m	scaffold_6	20404516	20411982
Wy0062	Wy0062.em		-	-	-	-	-	-		Ciclev10011305m	scaffold_6	15214969	15222324	C_unshiu_00034:mRNA_76.1	C_unshiu_00034	634791	641934	Peptidyl-prolyl cis-trans isomerase PASTICCINO1	AGI-02	78.531
Wy0033			-	-	-	-	-	-		Ciclev10011317m	scaffold_6	16709179	16712039
Tf0136			-	-	-	-	-	-		Ciclev10011338m	scaffold_6	21028837	21031557
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
Vt0016			-	-	-	-	-	-		Ciclev10011403m	scaffold_6	17974828	17979364
Af1270			-	-	-	-	-	-		Ciclev10011405m	scaffold_6	17589895	17593051
Cp0895		AAvailable marker	-	-	-	-	O	O		Ciclev10011406m	scaffold_6	19241700	19246874	C_unshiu_00089:mRNA_3.1	C_unshiu_00089	9945	14749	ATP-dependent RNA helicase	AGI-04	67.375
Al0004			-	-	-	-	-	-		Ciclev10011410m	scaffold_6	24157115	24161063
Af1443			-	-	-	-	-	-		Ciclev10011413m	scaffold_6	25048398	25053494	C_unshiu_00009:mRNA_3.1	C_unshiu_00009	15765	28846	Pentatricopeptide repeat-containing family protein	AGI-04	33.808
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
Bf0143			-	-	-	-	-	-		Ciclev10011434m	scaffold_6	25101237	25104868
Cp0955			-	-	-	-	-	-		Ciclev10011439m	scaffold_6	25101237	25104868
Al0518			-	-	-	-	-	-		Ciclev10011450m	scaffold_6	23306386	23311678
Al0022			-	-	-	-	-	-		Ciclev10011465m	scaffold_6	25364317	25368608	C_unshiu_00009:mRNA_62.1	C_unshiu_00009	346583	350755	Mitochondrial-processing peptidase subunit alpha									SA-09	42.503
Al0503			-	-	-	-	-	-		Ciclev10011469m	scaffold_6	21236903	21242261
Cp1741			-	-	-	-	-	-		Ciclev10011473m	scaffold_6	15803864	15809998
Bf0123			-	-	-	-	-	-	SI141	Ciclev10011473m	scaffold_6	15803864	15809998	C_unshiu_00284:mRNA_13.1	C_unshiu_00284	114758	120828	Sulfoquinovosyldiacylglycerol 2	AGI-08	92.221							RP-04	10.226
Ov0107			-	-	-	-	-	-		Ciclev10011477m	scaffold_6	18855028	18858879
Cp1745			-	-	-	-	-	-		Ciclev10011480m	scaffold_6	16903668	16906771
Tf0373			-	-	-	-	-	-	SI088	Ciclev10011502m	scaffold_6	21229813	21233537	C_unshiu_00037:mRNA_60.1	C_unshiu_00037	387538	391239	Uridylate kinase, putative	AGI-04	61.716
Ov0405			-	-	-	-	-	-		Ciclev10011509m	scaffold_6	18406856	18412391
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
Wy0016			-	-	-	-	-	-	SI068	Ciclev10011522m	scaffold_6	18491789	18493623	C_unshiu_01309:mRNA_6.1

Key word search

Target: Genome/map	Scaffold/LG