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miRNA: 3'- uAUGACUa---CGC-GUCGCg-------------GCGGUCGCG- -5'
miRNA: 3'- uaUGACUACGCGUCG---CGGcGGUCGCg -5'
miRNA: 3'- uaUGACUACG----------CGU-CGCGGCGGUCGcg -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 2329 | 5' | -58.8 | NC_001416.1 | + | 5392 | 0.72 | 0.185435 |
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Target: 5'- uUACUGAcgugGUGcCAGCGacggagggcgagaaCGCCAGCGCg -3' miRNA: 3'- uAUGACUa---CGC-GUCGCg-------------GCGGUCGCG- -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 12847 | 0.79 | 0.057451 |
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Target: 5'- -gGCUGAUGCGCGGCuauGCCaCCGGCGg -3' miRNA: 3'- uaUGACUACGCGUCG---CGGcGGUCGCg -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 20064 | 0.79 | 0.059149 |
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Target: 5'- -gACUGAUGCaacugacucaGCAcGCGCCGCCAGCa- -3' miRNA: 3'- uaUGACUACG----------CGU-CGCGGCGGUCGcg -5' |
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| 2329 | 5' | -58.8 | NC_001416.1 | + | 2562 | 1.1 | 0.000258 |
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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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