miRNA: 3'- -CAGCU---GACuCUGAGUCGuGGCCa--CUa -5'
miRNA: 3'- caGCUGACU------CUGagUCGUGGCCACUA- -5'
miRNA: 3'- cAGCUG-ACUCUGAgUCGUGgcCACUA- -5'
miRNA: 3'- -CAGCUGACUCUGAGUCGUGGCCACUA- -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 | |||||||
| 32299 | 5' | -55.3 | NC_007024.1 | + | 29720 | 0.67 | 0.637794 |
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Target: 5'- gGUCGGgauCUGuGGCUCAGCuCCGGccgGAa -3' miRNA: 3'- -CAGCU---GACuCUGAGUCGuGGCCa--CUa -5' |
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| 32299 | 5' | -55.3 | NC_007024.1 | + | 32247 | 0.68 | 0.538689 |
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Target: 5'- -aCGGCUGAaaugccGAU--GGCGCCGGUGAUg -3' miRNA: 3'- caGCUGACU------CUGagUCGUGGCCACUA- -5' |
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| 32299 | 5' | -55.3 | NC_007024.1 | + | 21806 | 0.69 | 0.47553 |
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Target: 5'- aUCGACuUGAGGCUgGGCACa-GUGAUc -3' miRNA: 3'- cAGCUG-ACUCUGAgUCGUGgcCACUA- -5' |
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| 32299 | 5' | -55.3 | NC_007024.1 | + | 6959 | 1.05 | 0.001778 |
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Target: 5'- gGUCGACUGAGACUCAGCACCGGUGAUc -3' miRNA: 3'- -CAGCUGACUCUGAGUCGUGGCCACUA- -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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