Difference between revisions of "Nelumbo v. Amborella"
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(Created page with 'http://genomevolution.org/r/4pcd') |
(→GEvo Analyses of 1:4 syntenic depth regions) |
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| − | [[File:Screen shot 2012-04-10 at 12.03.32 PM.png|thumb|center|600px|http://genomevolution.org/r/4pcd]] | + | [[File:Screen shot 2012-04-10 at 12.03.32 PM.png|thumb|center|600px|[[Syntenic dotplot]] of Ambroella (x-axis) to Nelumbo (y-axis). Note that each region of Amborella is syntenic to two regions of Nelumbo. Results may be regenerated at: http://genomevolution.org/r/4pcd]] |
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| + | Interestingly, SynFind's syntenic depth calculation shows: | ||
| + | <pre> | ||
| + | Syntenic Depth: | ||
| + | Nelumbo nucifera (sacred lotus) | ||
| + | Depth 1 5222 of 18684 27.95% | ||
| + | Depth 2 11809 of 18684 63.20% | ||
| + | Depth 3 1217 of 18684 6.51% | ||
| + | Depth 4 406 of 18684 2.17% | ||
| + | Depth 5 24 of 18684 0.13% | ||
| + | Depth 6 6 of 18684 0.03% | ||
| + | </pre> | ||
| + | |||
| + | Shows that there may be a 1:4 amborella to Nelumbo. This would mean that Nelumbo is a double tetraploidy. Results may be regenerated at: http://genomevolution.org/r/4pd9 | ||
| + | |||
| + | ==GEvo Analyses of 1:4 [[syntenic depth]] regions== | ||
| + | |||
| + | |||
| + | [[File:Screen shot 2012-04-10 at 3.12.01 PM.png|thumb|center|600px|[[GEvo]] analysis of a 1xAmborella : 4xNelumbo syntenic regions. Note that the Amborella regions is divided between the two pairs of Nelumbo regions. Results may be regenerated at: http://genomevolution.org/r/4pdi]] | ||
| + | |||
| + | [[File:Screen shot 2012-04-10 at 4.06.31 PM.png |thumb|center|600px|[[GEvo]] analysis of a 1xAmborella : 4xNelumbo syntenic regions. Note that the Amborella regions is divided between the two pairs of Nelumbo regions. Results may be regenerated at: http://genomevolution.org/r/4ped]] | ||
| + | |||
| + | [[File:Screen shot 2012-04-10 at 4.15.16 PM.png|thumb|center|600px|[[GEvo]] analysis of a 1xAmborella : 4xNelumbo syntenic regions. Note that the Amborella regions is divided between the two pairs of Nelumbo regions. Results may be regenerated at: http://genomevolution.org/r/4pef]] | ||
| + | |||
| + | [[File:Screen shot 2012-04-10 at 3.26.43 PM.png|thumb|center|600px|[[GEvo]] analysis of a 1xAmborella : 4xNelumbo syntenic regions. All four Nelumbo regions show [[intercalated synteny]] to Ambroella. Results may be regenerated at http://genomevolution.org/r/4pdt]] | ||
| + | |||
| + | [[File:Screen shot 2012-04-10 at 4.01.01 PM.png|thumb|center|600px|[[GEvo]] analysis of a 1xAmborella : 4xNelumbo syntenic regions. All four Nelumbo regions show [[intercalated synteny]] to Ambroella. Results may be regenerated at http://genomevolution.org/r/4pea]] | ||
| + | |||
| + | [[File:Screen shot 2012-04-10 at 4.09.20 PM.png|thumb|center|600px|[[GEvo]] analysis of a 1xAmborella : 4xNelumbo syntenic regions. All four Nelumbo regions show [[intercalated synteny]] to Ambroella. Results may be regenerated at http://genomevolution.org/r/4pee]] | ||
Latest revision as of 17:16, 10 April 2012
Syntenic dotplot of Ambroella (x-axis) to Nelumbo (y-axis). Note that each region of Amborella is syntenic to two regions of Nelumbo. Results may be regenerated at: http://genomevolution.org/r/4pcd
Interestingly, SynFind's syntenic depth calculation shows:
Syntenic Depth: Nelumbo nucifera (sacred lotus) Depth 1 5222 of 18684 27.95% Depth 2 11809 of 18684 63.20% Depth 3 1217 of 18684 6.51% Depth 4 406 of 18684 2.17% Depth 5 24 of 18684 0.13% Depth 6 6 of 18684 0.03%
Shows that there may be a 1:4 amborella to Nelumbo. This would mean that Nelumbo is a double tetraploidy. Results may be regenerated at: http://genomevolution.org/r/4pd9
GEvo Analyses of 1:4 syntenic depth regions
GEvo analysis of a 1xAmborella : 4xNelumbo syntenic regions. Note that the Amborella regions is divided between the two pairs of Nelumbo regions. Results may be regenerated at: http://genomevolution.org/r/4pdi
GEvo analysis of a 1xAmborella : 4xNelumbo syntenic regions. Note that the Amborella regions is divided between the two pairs of Nelumbo regions. Results may be regenerated at: http://genomevolution.org/r/4ped
GEvo analysis of a 1xAmborella : 4xNelumbo syntenic regions. Note that the Amborella regions is divided between the two pairs of Nelumbo regions. Results may be regenerated at: http://genomevolution.org/r/4pef
GEvo analysis of a 1xAmborella : 4xNelumbo syntenic regions. All four Nelumbo regions show intercalated synteny to Ambroella. Results may be regenerated at http://genomevolution.org/r/4pdt
GEvo analysis of a 1xAmborella : 4xNelumbo syntenic regions. All four Nelumbo regions show intercalated synteny to Ambroella. Results may be regenerated at http://genomevolution.org/r/4pea
GEvo analysis of a 1xAmborella : 4xNelumbo syntenic regions. All four Nelumbo regions show intercalated synteny to Ambroella. Results may be regenerated at http://genomevolution.org/r/4pee
