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**Eliminate Orphans - Remove comparison maps that don't have correspondences to a reference map.
 Map Options
 Map Options
Map Set Oryza sativa japonica-Gramene Annot Seq 2009
(Reference Set)
Min.
Correspondences
Align Vertically
Stack
Maps Chr. 2
Start
Stop
Magnification
Flipped
hint: To save time, select the desired options before redrawing the map.
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 Feature Options
 Feature Options
Highlight Features:
Feature Types:
Feature Ignore Display if
Correspondence		 Always Display
Clone
Collinear block
EST
EST Cluster
FPC
Gene
Gene Prediction
Genomic DNA
GSS
mRNA
OVERGO
QTL
RFLP
SSR
STS
Synteny block
Other
 
Show Labels: None Landmarks All
Collapse Overlapping
Features:		 No Yes
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 Correspondence Options
 Correspondence Options
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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 Display Options
 Display Options
Map Size: tiny small medium large Custom
Font Size: Small Medium Large
Image Type: PNG JPEG GIF SVG *
Clean View (no navigation buttons): No Yes
Hide the Legend: No Yes
Size of Dot Plot Pixels: 1
*SVG output for high-resolution printing only (no hyperlinks).
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 Advanced Options
 Advanced Options

Draw Maps Using
Same Scale:		 No Yes
Clickable Image Use All Omit Features Omit All Buttons
Menu Order of Comparative Maps: Predefined
Order		 Number of
Correspondences
Ignore Image Map
Sanity Check:		 No Yes
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