Difference between revisions of "Bacteria Genomic Inversion"
From CoGepedia
| Line 1: | Line 1: | ||
[[Image:Master 4241 4243.CDS-CDS.blastn geneorder D20 g10 A5.w500.png|thumb|600px|right|Syntenic dotplot between substrains DH10B and W3110 of Escherichia coli K12. The inversion is shown by the red line that is off-set from the green line. Results can be regenerated in [[SynMap]] at Master 4241 4243.CDS-CDS.blastn geneorder D20 g10 A5.w500.png.]] | [[Image:Master 4241 4243.CDS-CDS.blastn geneorder D20 g10 A5.w500.png|thumb|600px|right|Syntenic dotplot between substrains DH10B and W3110 of Escherichia coli K12. The inversion is shown by the red line that is off-set from the green line. Results can be regenerated in [[SynMap]] at Master 4241 4243.CDS-CDS.blastn geneorder D20 g10 A5.w500.png.]] | ||
| − | It is easy to visualize genomic | + | It is easy to visualize genomic inversions with a [[syntenic dotplot]]. Since [[syntenic regions]] appear as colored lines in the syntenic dotplot generated by [[SynMap]], inversions are seen when a syntenic line has a discontinuity or break, and there is an adjacent line with an opposite slope (e.g. a positively sloping line has a break and adjacent to it is a negatively sloping line). |
| + | |||
| + | In the example shown here, SynMap colored the syntenic lines green if they have a positive slope and red if they have a negative slope. This plot has a nearly continuous green line starting at the origin in the lower left and sloping to the upper right. | ||
Revision as of 16:01, 28 December 2009
Syntenic dotplot between substrains DH10B and W3110 of Escherichia coli K12. The inversion is shown by the red line that is off-set from the green line. Results can be regenerated in SynMap at Master 4241 4243.CDS-CDS.blastn geneorder D20 g10 A5.w500.png.
It is easy to visualize genomic inversions with a syntenic dotplot. Since syntenic regions appear as colored lines in the syntenic dotplot generated by SynMap, inversions are seen when a syntenic line has a discontinuity or break, and there is an adjacent line with an opposite slope (e.g. a positively sloping line has a break and adjacent to it is a negatively sloping line).
In the example shown here, SynMap colored the syntenic lines green if they have a positive slope and red if they have a negative slope. This plot has a nearly continuous green line starting at the origin in the lower left and sloping to the upper right.
