miRNA: 3'- gaaaaCCGaaGUUCG-GCUCU-CGa--AGU- -5'
miRNA: 3'- gaaAACCG-AAGUUCGGC-------------UCUCGaaGU- -5'
miRNA: 3'- gaaaaCCG-AAGUUCGGCUCu--CGaaGU- -5'
miRNA: 3'- gaaaaCCGaaGUUCGGCUCUCGaagu -5'
miRNA: 3'- -GAAAACCGAAGUUCGGCUCUCGAAGU- -5'
Results 1 - 5 of 5 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 | |||||||
| 7651 | 3' | -49 | NC_001973.1 | + | 94763 | 0.67 | 0.99663 |
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Target: 5'- ----cGGCggCAAGCaCGAGAuGCgcgUCAa -3' miRNA: 3'- gaaaaCCGaaGUUCG-GCUCU-CGa--AGU- -5' |
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| 7651 | 3' | -49 | NC_001973.1 | + | 8561 | 0.67 | 0.996573 |
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Target: 5'- --cUUGGCgUUCAAGCCGcgcaagguuugcaAGAGCcgCGc -3' miRNA: 3'- gaaAACCG-AAGUUCGGC-------------UCUCGaaGU- -5' |
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| 7651 | 3' | -49 | NC_001973.1 | + | 137254 | 0.68 | 0.987278 |
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Target: 5'- ----gGGCuUUCGAGCCGAGuguGCggCGg -3' miRNA: 3'- gaaaaCCG-AAGUUCGGCUCu--CGaaGU- -5' |
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| 7651 | 3' | -49 | NC_001973.1 | + | 83971 | 0.72 | 0.923101 |
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Target: 5'- ----aGGCagCAGGCCGAGGGCa--- -3' miRNA: 3'- gaaaaCCGaaGUUCGGCUCUCGaagu -5' |
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| 7651 | 3' | -49 | NC_001973.1 | + | 149268 | 1.1 | 0.011155 |
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Target: 5'- uCUUUUGGCUUCAAGCCGAGAGCUUCAa -3' miRNA: 3'- -GAAAACCGAAGUUCGGCUCUCGAAGU- -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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