miRNA: 3'- aaCGUaAAGUCGGUCgGAcaACCGCc -5'
miRNA: 3'- aaCG--UAAAGUcGGUCGGACa---ACCGCC- -5'
miRNA: 3'- aACGUaaaguCGGUCGGACA----ACCGCC- -5'
miRNA: 3'- -AACGUAAAGUCGGUCGGACAACCGCC- -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 | |||||||
| 8465 | 3' | -53.7 | NC_002167.1 | + | 8953 | 0.67 | 0.593094 |
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Target: 5'- -cGCAgUUCAGCCAGgCUc-UGGCGc -3' miRNA: 3'- aaCGUaAAGUCGGUCgGAcaACCGCc -5' |
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| 8465 | 3' | -53.7 | NC_002167.1 | + | 10923 | 0.7 | 0.389243 |
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Target: 5'- -cGUcgAUUUCA-CCAGCCUGacgcUGGCGGa -3' miRNA: 3'- aaCG--UAAAGUcGGUCGGACa---ACCGCC- -5' |
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| 8465 | 3' | -53.7 | NC_002167.1 | + | 3851 | 0.76 | 0.184045 |
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Target: 5'- cUGCGau---GCCAGCCUGUucguUGGCGGg -3' miRNA: 3'- aACGUaaaguCGGUCGGACA----ACCGCC- -5' |
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| 8465 | 3' | -53.7 | NC_002167.1 | + | 19821 | 1.09 | 0.00073 |
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Target: 5'- gUUGCAUUUCAGCCAGCCUGUUGGCGGa -3' miRNA: 3'- -AACGUAAAGUCGGUCGGACAACCGCC- -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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