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**Eliminate Orphans - Remove comparison maps that don't have correspondences to a reference map.
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Map Set Oryza sativa japonica-Gramene Annot Seq 2009
(Reference Set)
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Maps Chr. 5
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Highlight Features:
Feature Types:
Feature Ignore Display if
Correspondence		 Always Display
Collinear block
EST
EST Cluster
Gene
Gene Prediction
Genomic DNA
GSS
mRNA
OVERGO
QTL
RFLP
SSR
STS
Synteny block
Other
 
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Features:		 No Yes
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 Correspondence Options
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Include Correspondence Types:
Evidence Ignore Use Less Than
Score		 Greater Than
Score		 Score
IAGP
Marker Identity
ISS
Wheat EST Breakpoint Interval
Amplified segment
Maize bin marker
centromeric_marker
Clone end
Collinear block
Constituent clone
contained_in_sequence
EST cluster
hybridisation
maizegdb_to_gramene
Mapped contig to clone
mate_pair
qtl_marker
related_probe
related_sequence
Shared sequence
Shared synonym
Source sequence
Subclone
Synteny
Synteny block
 
Aggregate Correspondences: No 1 Line 2 Lines
Correspondence lines drawn to: Feature Map
View Intra-Slot Correspondences: No yes
Aggregate evidence types separately: No yes
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Size of Dot Plot Pixels: 1
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Same Scale:		 No Yes
Clickable Image Use All Omit Features Omit All Buttons
Menu Order of Comparative Maps: Predefined
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Sanity Check:		 No Yes
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Map Details

Map Type: Sequence [ View Map Type Info ]
Map Set Name: Oryza sativa japonica - Gramene Annotated Nipponbare Sequence 2009 [ View Map Set Info ]
Map Name: Chr. 5
Map Start: 1 bp
Map Stop: 29,888,933 bp
Features by Type:
2 Collinear block
615 EST
2,082 EST Cluster
46 Gene
7 Gene Prediction
62 Genomic DNA
27 GSS
762 mRNA
20 OVERGO
624 QTL
706 RFLP
1,688 SSR
8 STS
35 Synteny block
6,684 Total

Map Features

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Items 1 to 25 of 6,684.       of 268 | Next
Oryza sativa japonica - Gramene Annotated Nipponbare Sequence 2009 - Chr. 5
(Click headers to resort)		 Comparative Maps
Feature Type Position (bp) Map Feature Type Position Evidence Actions
RM6034 SSR 7,034,255 - 7,034,442 No other positions
RM3683 SSR 7,176,299 - 7,176,572 No other positions
RM18115 SSR 7,205,811 - 7,205,939 No other positions
RM2998 SSR 7,235,105 - 7,235,342 Oryza sativa - JUT Akihi/IRAT109 QTL 2004 - 5 RM2998 SSR 45.02 (cM) Marker Identity View Maps
RM17823 SSR 1,645,371 - 1,645,668 No other positions
RM17824 SSR 1,646,403 - 1,646,596 No other positions
RM17827 SSR 1,650,390 - 1,650,702 No other positions
RM17828 SSR 1,650,395 - 1,650,759 No other positions
RM17830 SSR 1,668,057 - 1,668,354 No other positions
RM17831 SSR 1,708,949 - 1,709,197 No other positions
RM17833 SSR 1,719,811 - 1,720,298 No other positions
RM18376 SSR 14,557,449 - 14,557,616 No other positions
RM18378 SSR 14,598,424 - 14,598,820 No other positions
RM18052 SSR 5,828,074 - 5,828,546 No other positions
RM18053 SSR 5,853,584 - 5,853,760 No other positions
RM18054 SSR 5,871,937 - 5,872,225 No other positions
RM18055 SSR 5,877,800 - 5,878,095 No other positions
RM18004 SSR 5,030,702 - 5,030,890 No other positions
RM18005 SSR 5,030,941 - 5,031,290 No other positions
RM18006 SSR 5,032,463 - 5,032,660 No other positions
RM18010 SSR 5,114,188 - 5,114,475 No other positions
RM18013 SSR 5,167,258 - 5,167,600 No other positions
RM18014 SSR 5,189,081 - 5,189,493 No other positions
RM18018 SSR 5,230,735 - 5,230,998 No other positions
RM3328 SSR 5,266,921 - 5,267,003 Oryza sativa - IRMI 2003 - 5 RM3328 SSR 36.4 (cM) Marker Identity View Maps