miRNA: 3'- -AUUUAUG----UCUUa-----AUCGUUU--UCGUCAC- -5'
miRNA: 3'- auuuAUGUCU---UAAUCGUUUUCGUCac -5'
miRNA: 3'- auuuaUGUC--UUAaUCGUUUUCGUCAC- -5'
miRNA: 3'- -AUUUAUGUCUUAAUCGUUUUCGUCAC- -5'
Results 1 - 4 of 4 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 | |||||||
| 31580 | 3' | -39.9 | NC_006852.1 | + | 2083 | 0.67 | 0.999867 |
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Target: 5'- cUAAGUAUguuaAGAAgguuacUGGCAAAguAGCAGUGc -3' miRNA: 3'- -AUUUAUG----UCUUa-----AUCGUUU--UCGUCAC- -5' |
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| 31580 | 3' | -39.9 | NC_006852.1 | + | 14154 | 0.73 | 0.966344 |
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Target: 5'- ---uUGCAGAcacGUUAGUGGAGGCAGg- -3' miRNA: 3'- auuuAUGUCU---UAAUCGUUUUCGUCac -5' |
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| 31580 | 3' | -39.9 | NC_006852.1 | + | 22678 | 0.74 | 0.947054 |
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Target: 5'- ----gACAGccAAUcAGCAAAAGCAGUGu -3' miRNA: 3'- auuuaUGUC--UUAaUCGUUUUCGUCAC- -5' |
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| 31580 | 3' | -39.9 | NC_006852.1 | + | 15680 | 1.11 | 0.016693 |
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Target: 5'- uUAAAUACAGAAUUAGCAAAAGCAGUGg -3' miRNA: 3'- -AUUUAUGUCUUAAUCGUUUUCGUCAC- -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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