miRNA: 3'- aGAGUg-CAGua----CguCugGCUGCUCGA- -5'
miRNA: 3'- agaGUGCaGUACG----UCuGGCUGCUCGA- -5'
miRNA: 3'- aGAGUgCAGU-ACGUCUGGCUgcUCGa -5'
miRNA: 3'- aGAGUGCAGUacgUCUGGCUgCUCGa -5'
miRNA: 3'- -AGAGUGCAGUACGUCUGGCUGCUCGA- -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 | |||||||
| 27212 | 5' | -54.2 | NC_005832.1 | + | 70631 | 0.66 | 0.920275 |
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Target: 5'- cCUCAgaGUCugugagGguGugUGGCGAGCUg -3' miRNA: 3'- aGAGUg-CAGua----CguCugGCUGCUCGA- -5' |
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| 27212 | 5' | -54.2 | NC_005832.1 | + | 74583 | 0.69 | 0.787619 |
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Target: 5'- --aCACGgCGUGUuccgAGuCCGACGAGCUa -3' miRNA: 3'- agaGUGCaGUACG----UCuGGCUGCUCGA- -5' |
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| 27212 | 5' | -54.2 | NC_005832.1 | + | 11248 | 0.73 | 0.519177 |
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Target: 5'- cCUCAgGUCAgUGCAGGCCGAa-GGCg -3' miRNA: 3'- aGAGUgCAGU-ACGUCUGGCUgcUCGa -5' |
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| 27212 | 5' | -54.2 | NC_005832.1 | + | 67784 | 0.75 | 0.431599 |
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Target: 5'- gCUCACGUCA---GGGCCGAgGAGCg -3' miRNA: 3'- aGAGUGCAGUacgUCUGGCUgCUCGa -5' |
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| 27212 | 5' | -54.2 | NC_005832.1 | + | 79021 | 1.08 | 0.003531 |
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Target: 5'- cUCUCACGUCAUGCAGACCGACGAGCUc -3' miRNA: 3'- -AGAGUGCAGUACGUCUGGCUGCUCGA- -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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