miRNA: 3'- -UCaCGCGGCUGC-GGCG--GCGGGUUUCa -5'
miRNA: 3'- -UCa-CGCGGcUGCGGCgGCGGGUuuca -5'
miRNA: 3'- -UCA-C-GCGGCUGCGgCGGCGg---GUUUCA- -5'
miRNA: 3'- ucaC-GCGGCuGCGGCGGCGGGu--UUCA- -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 | |||||||
| 7578 | 5' | -61.1 | NC_001962.1 | + | 1733 | 0.67 | 0.543686 |
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Target: 5'- gAG-GUGCCGACGaCUGUguUGCCUAAAGa -3' miRNA: 3'- -UCaCGCGGCUGC-GGCG--GCGGGUUUCa -5' |
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| 7578 | 5' | -61.1 | NC_001962.1 | + | 2038 | 0.69 | 0.45861 |
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Target: 5'- cAGcgGCGCCuGCGCCGgUGCCCAc--- -3' miRNA: 3'- -UCa-CGCGGcUGCGGCgGCGGGUuuca -5' |
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| 7578 | 5' | -61.1 | NC_001962.1 | + | 77377 | 0.69 | 0.440662 |
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Target: 5'- uGGUcGuCGUCGGCGCgGCCGCaauuCAGAGUa -3' miRNA: 3'- -UCA-C-GCGGCUGCGgCGGCGg---GUUUCA- -5' |
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| 7578 | 5' | -61.1 | NC_001962.1 | + | 103419 | 0.73 | 0.272843 |
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Target: 5'- --cGcCGCCGcCGCCGCCGCCUgcuAAGUu -3' miRNA: 3'- ucaC-GCGGCuGCGGCGGCGGGu--UUCA- -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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