miRNA: 3'- -AUUUgUGUCUUaa----UCGuUUUCGUCac -5'
miRNA: 3'- auuugUGUCU---UAAUCGUUUUCGUCac -5'
miRNA: 3'- -AUUUGuGUCUuaAUCGUuuUCGUCAC- -5'
miRNA: 3'- auUUGUGucUUAaUCGUUUUCGUCAC- -5'
miRNA: 3'- -AUUUGUGUCUUAAUCGUUUUCGUCAC- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 6331 | 3' | -41.8 | NC_001846.1 | + | 29764 | 0.66 | 0.999297 |
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Target: 5'- aUAGAgGCAGAAggaaucAGCcAAAGCAGa- -3' miRNA: 3'- -AUUUgUGUCUUaa----UCGuUUUCGUCac -5' |
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| 6331 | 3' | -41.8 | NC_001846.1 | + | 14138 | 0.67 | 0.996552 |
|
Target: 5'- ----uGCAGAcgcAUUAGUGGAGGCAGg- -3' miRNA: 3'- auuugUGUCU---UAAUCGUUUUCGUCac -5' |
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| 6331 | 3' | -41.8 | NC_001846.1 | + | 15573 | 0.67 | 0.995802 |
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Target: 5'- uUAAAC-CAGG--UGGCAcuAGUAGUGg -3' miRNA: 3'- -AUUUGuGUCUuaAUCGUuuUCGUCAC- -5' |
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| 6331 | 3' | -41.8 | NC_001846.1 | + | 22668 | 0.72 | 0.926261 |
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Target: 5'- -uGACAUcaAAUcAGCAAAAGCAGUGu -3' miRNA: 3'- auUUGUGucUUAaUCGUUUUCGUCAC- -5' |
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| 6331 | 3' | -41.8 | NC_001846.1 | + | 15663 | 1.1 | 0.010142 |
|
Target: 5'- uUAAACACAGAAUUAGCAAAAGCAGUGg -3' miRNA: 3'- -AUUUGUGUCUUAAUCGUUUUCGUCAC- -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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