miRNA: 3'- -UCGUCGUCGUUGCGGGACAAGUCGUC- -5'
miRNA: 3'- ucguCGUCGUUGCGGGACAAGUCGUC- -5'
miRNA: 3'- ucGUCGUCGUUGcGGGACA-----------AGUC-GUC- -5'
miRNA: 3'- uCGUC-GUCGUUgCG-GGACaa-GUCGUC- -5'
miRNA: 3'- -UCGUCGUCgUUGCGGG-ACAA---GUCGUC- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 27044 | 3' | -55.9 | NC_005832.1 | + | 18002 | 1.08 | 0.001799 |
|
Target: 5'- cAGCAGCAGCAACGCCCUGUUCAGCAGc -3' miRNA: 3'- -UCGUCGUCGUUGCGGGACAAGUCGUC- -5' |
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| 27044 | 3' | -55.9 | NC_005832.1 | + | 17977 | 0.92 | 0.023032 |
|
Target: 5'- ---nGCAGCAACGCCCUGUUCAGCAGc -3' miRNA: 3'- ucguCGUCGUUGCGGGACAAGUCGUC- -5' |
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| 27044 | 3' | -55.9 | NC_005832.1 | + | 11489 | 0.71 | 0.51421 |
|
Target: 5'- -aCAGCAGCAGCuCCCUGUacggggugucuUCGGaCAGg -3' miRNA: 3'- ucGUCGUCGUUGcGGGACA-----------AGUC-GUC- -5' |
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| 27044 | 3' | -55.9 | NC_005832.1 | + | 6638 | 0.69 | 0.608634 |
|
Target: 5'- cGCAGaUAGCGGgGCuCCUGggcCAGCAGu -3' miRNA: 3'- uCGUC-GUCGUUgCG-GGACaa-GUCGUC- -5' |
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| 27044 | 3' | -55.9 | NC_005832.1 | + | 2458 | 0.66 | 0.785284 |
|
Target: 5'- cAGCAGUAGgAGUGUCCgUGUUugaCAGCGGg -3' miRNA: 3'- -UCGUCGUCgUUGCGGG-ACAA---GUCGUC- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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