miRNA: 3'- -ACUC-CaC-CGUGCGCCAGUCgCAGaac -5'
miRNA: 3'- aCUCCaCCGUGCGC-CAGU---------------CGCAGAac -5'
miRNA: 3'- aCUCCA----CCGUGCGC-CAGUCGCagaac -5'
miRNA: 3'- -ACUCCAcCGUG-CGCCAG------UCGCAGAAC- -5'
miRNA: 3'- -ACUCCACCGUGCGCCAGUCGCAGAAC- -5'
Results 21 - 25 of 25 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 | |||||||
| 25685 | 5' | -57.1 | NC_005337.1 | + | 80219 | 0.72 | 0.494031 |
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Target: 5'- aUGAGcGcGcGCACGCGGUCGGgGUCg-- -3' miRNA: 3'- -ACUC-CaC-CGUGCGCCAGUCgCAGaac -5' |
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| 25685 | 5' | -57.1 | NC_005337.1 | + | 38305 | 0.72 | 0.488265 |
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Target: 5'- gGAGG-GGCGCGCGcGUCGagcgcaacgaccgacGCGUCUg- -3' miRNA: 3'- aCUCCaCCGUGCGC-CAGU---------------CGCAGAac -5' |
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| 25685 | 5' | -57.1 | NC_005337.1 | + | 28153 | 0.75 | 0.337605 |
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Target: 5'- aGAGGUcaacGGCACGCGuGUCAGCGa---- -3' miRNA: 3'- aCUCCA----CCGUGCGC-CAGUCGCagaac -5' |
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| 25685 | 5' | -57.1 | NC_005337.1 | + | 64289 | 0.77 | 0.261292 |
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Target: 5'- aUGAGGU-GCACgGCGGUCgcguccGGCGUCUUGc -3' miRNA: 3'- -ACUCCAcCGUG-CGCCAG------UCGCAGAAC- -5' |
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| 25685 | 5' | -57.1 | NC_005337.1 | + | 37239 | 1.08 | 0.002334 |
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Target: 5'- aUGAGGUGGCACGCGGUCAGCGUCUUGc -3' miRNA: 3'- -ACUCCACCGUGCGCCAGUCGCAGAAC- -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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