miRNA: 3'- -GGuCGACG-----UGGuCGUUUACCUA-GUAG- -5'
miRNA: 3'- -GGUCgACGUgGUCGUUUACCUaguag -5'
miRNA: 3'- -GGUCGAC-GUGGUCGUuu-------ACCUAGUag -5'
miRNA: 3'- -GGUCGACGUGGUCGUUUACCUAGUAG- -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 | |||||||
| 30328 | 5' | -50.6 | NC_006428.1 | + | 12707 | 0.66 | 0.533759 |
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Target: 5'- uCCuGUUGUauaagACCuGUAGAUGGGUgCAUCa -3' miRNA: 3'- -GGuCGACG-----UGGuCGUUUACCUA-GUAG- -5' |
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| 30328 | 5' | -50.6 | NC_006428.1 | + | 7188 | 0.7 | 0.327512 |
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Target: 5'- uCCAGgUGCAgUGGCAGAUGGAa---- -3' miRNA: 3'- -GGUCgACGUgGUCGUUUACCUaguag -5' |
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| 30328 | 5' | -50.6 | NC_006428.1 | + | 10734 | 0.71 | 0.309526 |
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Target: 5'- aCCAGCUGaCACUAGUGuguuugaucUGGAUCAg- -3' miRNA: 3'- -GGUCGAC-GUGGUCGUuu-------ACCUAGUag -5' |
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| 30328 | 5' | -50.6 | NC_006428.1 | + | 1437 | 1.13 | 0.000234 |
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Target: 5'- uCCAGCUGCACCAGCAAAUGGAUCAUCa -3' miRNA: 3'- -GGUCGACGUGGUCGUUUACCUAGUAG- -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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