miRNA: 3'- cUCCaGCA---ACGcGCAGCGGAAGaacc -5'
miRNA: 3'- -CUCCAGCaa--CGcGCAGCGGaagaACC- -5'
miRNA: 3'- cuCC-AGCAaCgCGCAGCGGAAGAACc -5'
miRNA: 3'- -CUCCAGCAACGCGCAGCGGAAGAACC- -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 | |||||||
| 22699 | 5' | -54.1 | NC_005091.1 | + | 44527 | 0.66 | 0.796302 |
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Target: 5'- cAGGcCGUcgcUGC-CGUCGCCUUCg--- -3' miRNA: 3'- cUCCaGCA---ACGcGCAGCGGAAGaacc -5' |
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| 22699 | 5' | -54.1 | NC_005091.1 | + | 41969 | 0.66 | 0.776593 |
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Target: 5'- cGAGGUCGagcaGCaCGUCGCCg---UGGc -3' miRNA: 3'- -CUCCAGCaa--CGcGCAGCGGaagaACC- -5' |
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| 22699 | 5' | -54.1 | NC_005091.1 | + | 46535 | 0.7 | 0.583131 |
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Target: 5'- -cGGcUUGUcGaGCGUCGCCUUCUUGa -3' miRNA: 3'- cuCC-AGCAaCgCGCAGCGGAAGAACc -5' |
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| 22699 | 5' | -54.1 | NC_005091.1 | + | 29526 | 1.1 | 0.001216 |
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Target: 5'- cGAGGUCGUUGCGCGUCGCCUUCUUGGu -3' miRNA: 3'- -CUCCAGCAACGCGCAGCGGAAGAACC- -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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