miRNA: 3'- gaGCGGAucGAC-GCAGUCAAGgCUGU- -5'
miRNA: 3'- gaGCGGa--UCG-ACGCAGUCAa---GGCUgu -5'
miRNA: 3'- gAGCggaUCGACGCAGUCAAGGCuGU- -5'
miRNA: 3'- -GAGCGGAUCGACGCAGUCAAGGCUGU- -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 | |||||||
| 4319 | 5' | -55.1 | NC_001720.1 | + | 32501 | 0.67 | 0.580247 |
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Target: 5'- -cCGCCUu-CUGuUGUCAGUUCgGACGa -3' miRNA: 3'- gaGCGGAucGAC-GCAGUCAAGgCUGU- -5' |
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| 4319 | 5' | -55.1 | NC_001720.1 | + | 17043 | 0.67 | 0.569123 |
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Target: 5'- -gCGCCgaaAGCgUGCGUCGGUgacgCCGGu- -3' miRNA: 3'- gaGCGGa--UCG-ACGCAGUCAa---GGCUgu -5' |
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| 4319 | 5' | -55.1 | NC_001720.1 | + | 23962 | 0.68 | 0.493195 |
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Target: 5'- uUCGgaaGGUUGCGUCAGUUCCG-CGa -3' miRNA: 3'- gAGCggaUCGACGCAGUCAAGGCuGU- -5' |
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| 4319 | 5' | -55.1 | NC_001720.1 | + | 1274 | 1.09 | 0.000787 |
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Target: 5'- uCUCGCCUAGCUGCGUCAGUUCCGACAg -3' miRNA: 3'- -GAGCGGAUCGACGCAGUCAAGGCUGU- -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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