miRNA: 3'- aAGUCA--AgGACCG-UA------------UGGCUACGGUc -5'
miRNA: 3'- -AAGUcaaGGACCGUaUGGCUACGGUC- -5'
miRNA: 3'- -AAGUcAAGGAcCGUA-UGGCUACGGUc -5'
miRNA: 3'- -AAGUCAAGGACCGUAUGGCUACGGUC- -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 | |||||||
| 21048 | 3' | -53.4 | NC_004745.1 | + | 4350 | 0.66 | 0.570892 |
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Target: 5'- gUCGGUggUgCUGGCgAUggagccggugacACCGAUGCCAa -3' miRNA: 3'- aAGUCA--AgGACCG-UA------------UGGCUACGGUc -5' |
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| 21048 | 3' | -53.4 | NC_004745.1 | + | 1178 | 0.67 | 0.559216 |
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Target: 5'- aUUCAcc-UUUGGCGaGCCGGUGCCGGu -3' miRNA: 3'- -AAGUcaaGGACCGUaUGGCUACGGUC- -5' |
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| 21048 | 3' | -53.4 | NC_004745.1 | + | 16769 | 0.67 | 0.513281 |
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Target: 5'- uUUCGuUUCCUcGCGUcGCCGGUGCCGu -3' miRNA: 3'- -AAGUcAAGGAcCGUA-UGGCUACGGUc -5' |
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| 21048 | 3' | -53.4 | NC_004745.1 | + | 16949 | 1.06 | 0.00088 |
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Target: 5'- aUUCAGUUCCUGGCAUACCGAUGCCAGu -3' miRNA: 3'- -AAGUCAAGGACCGUAUGGCUACGGUC- -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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