miRNA: 3'- -GUCCU--UCAGUGGUCUga--------GCAGCAGcu -5'
miRNA: 3'- -GUCCUucAGUG-GUCUGAGCAGCAGcu -5'
miRNA: 3'- guCCUUCAGUgGUCUGaGCAGC-AGcu -5'
miRNA: 3'- -GUCCUUCAGUGGUCUGAGCAGCAGCU- -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 | |||||||
| 17981 | 5' | -53.1 | NC_004665.1 | + | 15511 | 0.66 | 0.73159 |
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Target: 5'- cCGGGAuuGGUCAUCAGGaugccgcaaaCGUCGUCa- -3' miRNA: 3'- -GUCCU--UCAGUGGUCUga--------GCAGCAGcu -5' |
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| 17981 | 5' | -53.1 | NC_004665.1 | + | 18214 | 0.67 | 0.664478 |
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Target: 5'- aCGGGA--UCACuCAGGUUCGUCGUCu- -3' miRNA: 3'- -GUCCUucAGUG-GUCUGAGCAGCAGcu -5' |
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| 17981 | 5' | -53.1 | NC_004665.1 | + | 20314 | 0.7 | 0.518056 |
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Target: 5'- -cGGAAGUCAgCAGGC-CGUCGaUCu- -3' miRNA: 3'- guCCUUCAGUgGUCUGaGCAGC-AGcu -5' |
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| 17981 | 5' | -53.1 | NC_004665.1 | + | 18025 | 1.09 | 0.001231 |
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Target: 5'- uCAGGAAGUCACCAGACUCGUCGUCGAu -3' miRNA: 3'- -GUCCUUCAGUGGUCUGAGCAGCAGCU- -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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