miRNA: 3'- aaAGCUuCAGGUCaAGCUCG---AGCCGC- -5'
miRNA: 3'- aaAGCUUCAGgUCa---AGcUCGAGCCGc -5'
miRNA: 3'- aaAGCUUCAG------------GUCA---AGCUCGAgCCGC- -5'
miRNA: 3'- -AAAGCUUCAGGUCAAGCUCGAGCCGC- -5'
Results 21 - 24 of 24 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 | |||||||
| 16289 | 5' | -53.1 | NC_004084.1 | + | 36169 | 0.73 | 0.442087 |
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Target: 5'- -gUCGAcGUCCGGgUUGAGUaacUCGGCGa -3' miRNA: 3'- aaAGCUuCAGGUCaAGCUCG---AGCCGC- -5' |
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| 16289 | 5' | -53.1 | NC_004084.1 | + | 18113 | 0.73 | 0.442087 |
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Target: 5'- -gUCGAGGUCgGGgaugUCcGGCUCGGCc -3' miRNA: 3'- aaAGCUUCAGgUCa---AGcUCGAGCCGc -5' |
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| 16289 | 5' | -53.1 | NC_004084.1 | + | 21047 | 0.74 | 0.394192 |
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Target: 5'- -gUCGAAGUCaggcggccaccgCAGUgcuUCGAGCUgGGCGu -3' miRNA: 3'- aaAGCUUCAG------------GUCA---AGCUCGAgCCGC- -5' |
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| 16289 | 5' | -53.1 | NC_004084.1 | + | 39391 | 1.06 | 0.00259 |
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Target: 5'- gUUUCGAAGUCCAGUUCGAGCUCGGCGu -3' miRNA: 3'- -AAAGCUUCAGGUCAAGCUCGAGCCGC- -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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