miRNA: 3'- aCgACaGGa-CuuCCGGGAACUAC-CUG- -5'
miRNA: 3'- -ACGACAGG------------ACuuCCGGGaaCU---ACCUG- -5'
miRNA: 3'- aCGaCAGG-ACUUCC-GGGaaCUACCUG- -5'
miRNA: 3'- -ACGACAGGACUUCCGGGAACUACCUG- -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 | |||||||
| 6120 | 5' | -55 | NC_001826.1 | + | 69476 | 0.67 | 0.810949 |
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Target: 5'- gGgUGcCCggGgcGGCCCUUGGUGcGGCc -3' miRNA: 3'- aCgACaGGa-CuuCCGGGAACUAC-CUG- -5' |
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| 6120 | 5' | -55 | NC_001826.1 | + | 113330 | 0.68 | 0.782909 |
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Target: 5'- aUGCUGUCCacgcaaacauuaUGuuGGCCCaaGGgcuUGGGCg -3' miRNA: 3'- -ACGACAGG------------ACuuCCGGGaaCU---ACCUG- -5' |
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| 6120 | 5' | -55 | NC_001826.1 | + | 10435 | 0.69 | 0.733394 |
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Target: 5'- cGCaGUCUgUGAGGGaCCCg-GGUGGACa -3' miRNA: 3'- aCGaCAGG-ACUUCC-GGGaaCUACCUG- -5' |
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| 6120 | 5' | -55 | NC_001826.1 | + | 82181 | 1.11 | 0.001718 |
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Target: 5'- aUGCUGUCCUGAAGGCCCUUGAUGGACa -3' miRNA: 3'- -ACGACAGGACUUCCGGGAACUACCUG- -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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