Map Options

 Map Options

Map Set	Add Maps Left		Barley-Barley, B73xCPI (Reference Set)		Barley-Barley, Consensus 2005, SNP		Add Maps Right
Min. Correspondences
Align Vertically
Stack
Maps			Barley, B73xCPI-3H		Hordeum-Consensus2005-SNP-3H
Start
Stop
Magnification			1/8 1/4 1/2 Original 2 3 4 5 10 20		1/8 1/4 1/2 Original 2 3 4 5 10 20
Flipped

hint: To save time, select the desired options before redrawing the map.
(Hide Map Menu)

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 Feature Options

 Feature Options

Highlight Features:

Feature Types:

Feature Ignore Display if Correspondence Always Display locus Other

Show Labels: None Landmarks All Collapse Overlapping Features: No Yes

(Hide Feature Menu)

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 Correspondence Options

 Correspondence Options

Include Correspondence Types:

Evidence Ignore Use Less Than Score Greater Than Score Score Automated name-based BLASTN

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

(Hide Correspondence Menu)

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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	1 2 3 4 5 6 7 8 9 10

*SVG output for high-resolution printing only (no hyperlinks).
(Hide Display Menu)

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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

(Hide Advanced Menu)

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