miRNA: 3'- ggUGCGGUGGACGUCG----UCGauuUGCC- -5'
miRNA: 3'- gGUGcGGUGGACgUCGUCGauuUGCC- -5'
miRNA: 3'- gGugCGgUGGAcGUCGUC--GAUu--UGCC- -5'
miRNA: 3'- -GGUGCgGUGGACGUCGU--CGAuuuGCC- -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
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| Predicted miRNA align pattern | |||||||
| 4348 | 3' | -54.2 | NC_001720.1 | + | 22672 | 0.66 | 0.694212 |
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Target: 5'- -aGCGUUGCCUGUGGCgaaaGGCgu-ACGGa -3' miRNA: 3'- ggUGCGGUGGACGUCG----UCGauuUGCC- -5' |
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| 4348 | 3' | -54.2 | NC_001720.1 | + | 14308 | 0.66 | 0.694212 |
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Target: 5'- gCAC-CCGCCUGgAGUGGC---GCGGc -3' miRNA: 3'- gGUGcGGUGGACgUCGUCGauuUGCC- -5' |
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| 4348 | 3' | -54.2 | NC_001720.1 | + | 14443 | 0.66 | 0.716224 |
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Target: 5'- aCugGCgGCCUcCGGCAGgcCUAuauACGGg -3' miRNA: 3'- gGugCGgUGGAcGUCGUC--GAUu--UGCC- -5' |
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| 4348 | 3' | -54.2 | NC_001720.1 | + | 21155 | 0.66 | 0.737889 |
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Target: 5'- uCUAUG-CACCUGCGGCAccGCUuccUGGg -3' miRNA: 3'- -GGUGCgGUGGACGUCGU--CGAuuuGCC- -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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