miRNA: 3'- uaUGACUA---CGCGUCG-CGGCgGUCGCG- -5'
miRNA: 3'- uAUGACUa---CGC-GUCGCg-------------GCGGUCGCG- -5'
miRNA: 3'- uAUGAcuACGcGUCGCGGCGG----UCGCG- -5'
miRNA: 3'- -UAUGACUACGCGUCGCGGCGGUCGCG- -5'
Results 21 - 24 of 24 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 2329 | 5' | -58.8 | NC_001416.1 | + | 7808 | 0.67 | 0.392775 |
|
Target: 5'- -gACUGAUgagGUGCGGCaGCUG-CGGCGUg -3' miRNA: 3'- uaUGACUA---CGCGUCG-CGGCgGUCGCG- -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 5392 | 0.72 | 0.185435 |
|
Target: 5'- uUACUGAcgugGUGcCAGCGacggagggcgagaaCGCCAGCGCg -3' miRNA: 3'- uAUGACUa---CGC-GUCGCg-------------GCGGUCGCG- -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 4921 | 0.67 | 0.411238 |
|
Target: 5'- uUGCU--UGC-CAGUGCCGCCucccGGCGUc -3' miRNA: 3'- uAUGAcuACGcGUCGCGGCGG----UCGCG- -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 2562 | 1.1 | 0.000258 |
|
Target: 5'- aAUACUGAUGCGCAGCGCCGCCAGCGCa -3' miRNA: 3'- -UAUGACUACGCGUCGCGGCGGUCGCG- -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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