miRNA: 3'- aCCcUGa---ACGGaGCUAGCAGUGuCGC- -5'
miRNA: 3'- -ACcCUGaaCGGAGCuaGCAGuGUCGC- -5'
miRNA: 3'- aCCc----UGaACGGA------GCUAGCAGUGUCGC- -5'
miRNA: 3'- -ACCCUGAACGGAGCUAGCAGUGUCGC- -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 | |||||||
| 12170 | 5' | -55 | NC_003309.1 | + | 47616 | 0.66 | 0.715664 |
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Target: 5'- aGGaACguccUGCC-CGGUCGUCGCcGCGc -3' miRNA: 3'- aCCcUGa---ACGGaGCUAGCAGUGuCGC- -5' |
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| 12170 | 5' | -55 | NC_003309.1 | + | 44923 | 0.66 | 0.715664 |
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Target: 5'- gUGcGGCc-GCCUCGggCGUC-CAGCGg -3' miRNA: 3'- -ACcCUGaaCGGAGCuaGCAGuGUCGC- -5' |
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| 12170 | 5' | -55 | NC_003309.1 | + | 6781 | 0.68 | 0.616994 |
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Target: 5'- aGGucaauGCcUGCCUgguacuUGAUCGUCACGGCGc -3' miRNA: 3'- aCCc----UGaACGGA------GCUAGCAGUGUCGC- -5' |
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| 12170 | 5' | -55 | NC_003309.1 | + | 42066 | 1.08 | 0.001148 |
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Target: 5'- aUGGGACUUGCCUCGAUCGUCACAGCGc -3' miRNA: 3'- -ACCCUGAACGGAGCUAGCAGUGUCGC- -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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