miRNA: 3'- -CCGgACCUaGUCUGGCaACUgaa--GCC- -5'
miRNA: 3'- -CCGGaCCUAGUCUGGCAACUgaa--GCc -5'
miRNA: 3'- -CCGGACCU-------AGUCUggCAACUgAAGCc -5'
miRNA: 3'- -CCGGACCUAGUCUGGCAACUGAAGCC- -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 | |||||||
| 32302 | 5' | -52.5 | NC_007024.1 | + | 6929 | 0.67 | 0.846611 |
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Target: 5'- uGGCgUGGG-CAGGCCGgUGAaguggCGGc -3' miRNA: 3'- -CCGgACCUaGUCUGGCaACUgaa--GCC- -5' |
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| 32302 | 5' | -52.5 | NC_007024.1 | + | 53553 | 0.69 | 0.739998 |
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Target: 5'- uGGCCgGGGUUAGAUCGUUGGauagaCGa -3' miRNA: 3'- -CCGGaCCUAGUCUGGCAACUgaa--GCc -5' |
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| 32302 | 5' | -52.5 | NC_007024.1 | + | 34597 | 0.71 | 0.619013 |
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Target: 5'- gGGCCUGGAauucuacUCGGAa-GUUGAgUUCGa -3' miRNA: 3'- -CCGGACCU-------AGUCUggCAACUgAAGCc -5' |
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| 32302 | 5' | -52.5 | NC_007024.1 | + | 8684 | 1.12 | 0.001424 |
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Target: 5'- uGGCCUGGAUCAGACCGUUGACUUCGGc -3' miRNA: 3'- -CCGGACCUAGUCUGGCAACUGAAGCC- -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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