miRNA: 3'- -GUC-UACa-------AGCGCGGua----CGUCGGCGUu -5'
miRNA: 3'- -GUCUAcaAGCGCGGU--ACGUCGGcGUU- -5'
miRNA: 3'- -GUCU--ACAa-GCGCGGU---------ACG-UCGGCGUU- -5'
miRNA: 3'- guCUACaa--GCGCGGUACGuCGGCGUu -5'
miRNA: 3'- -GUCUACAAGCGCGGUACGUCGGCGUU- -5'
Results 1 - 5 of 5 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 | |||||||
| 1272 | 3' | -56.1 | NC_001317.1 | + | 17293 | 0.67 | 0.381169 |
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Target: 5'- uCAGcGUGacucggcgUCGCGCCugaaugGCAGCUGCAu -3' miRNA: 3'- -GUC-UACa-------AGCGCGGua----CGUCGGCGUu -5' |
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| 1272 | 3' | -56.1 | NC_001317.1 | + | 18236 | 0.67 | 0.371801 |
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Target: 5'- cCAGGUaaUCGCGCCAagUGCGGUCaCAAu -3' miRNA: 3'- -GUCUAcaAGCGCGGU--ACGUCGGcGUU- -5' |
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| 1272 | 3' | -56.1 | NC_001317.1 | + | 27116 | 0.68 | 0.344649 |
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Target: 5'- cCGGAuaUGUcgCGCGCCGauauugaccUGCuGGCCGCGGa -3' miRNA: 3'- -GUCU--ACAa-GCGCGGU---------ACG-UCGGCGUU- -5' |
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| 1272 | 3' | -56.1 | NC_001317.1 | + | 9550 | 0.7 | 0.24381 |
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Target: 5'- -uGAUGcaccCGCGCCAUGC-GCUGCAc -3' miRNA: 3'- guCUACaa--GCGCGGUACGuCGGCGUu -5' |
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| 1272 | 3' | -56.1 | NC_001317.1 | + | 27443 | 1.05 | 0.000498 |
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Target: 5'- gCAGAUGUUCGCGCCAUGCAGCCGCAAu -3' miRNA: 3'- -GUCUACAAGCGCGGUACGUCGGCGUU- -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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