miRNA: 3'- aCGG-----------ACACCG--ACCU-------CGGUGGUGGUgA- -5'
miRNA: 3'- aCgGACACCGACCuCGG--UGGUG-GUGa -5'
miRNA: 3'- -ACGGaCACCGACcUCGG---------------UGG---UGGUGa -5'
miRNA: 3'- -ACGGACACCGACCUCGGUGGUGGUGA- -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 | |||||||
| 1116 | 5' | -60.3 | NC_000940.1 | + | 2770 | 0.66 | 0.075796 |
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Target: 5'- gGCUgucaacacuagUGUGGCaaUGGGuccaaacGCCACCACCAgUg -3' miRNA: 3'- aCGG-----------ACACCG--ACCU-------CGGUGGUGGUgA- -5' |
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| 1116 | 5' | -60.3 | NC_000940.1 | + | 4680 | 0.66 | 0.064454 |
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Target: 5'- aGgCUGUGGCUGGuGUUaaGCCAUaCACa -3' miRNA: 3'- aCgGACACCGACCuCGG--UGGUG-GUGa -5' |
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| 1116 | 5' | -60.3 | NC_000940.1 | + | 5228 | 0.67 | 0.053495 |
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Target: 5'- aUGCCcGUGGCUGcGGCCcaggcucuggaaaugGCCguuGCCACa -3' miRNA: 3'- -ACGGaCACCGACcUCGG---------------UGG---UGGUGa -5' |
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| 1116 | 5' | -60.3 | NC_000940.1 | + | 7217 | 1.07 | 0.000017 |
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Target: 5'- gUGCCUGUGGCUGGAGCCACCACCACUc -3' miRNA: 3'- -ACGGACACCGACCUCGGUGGUGGUGA- -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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