miRNA: 3'- -CGuUUCAU-----------AC-GCGUGuCCGACGGCUG- -5'
miRNA: 3'- cgUUUCAUA----CGCGuGUCCG-ACGGCUg -5'
miRNA: 3'- cguuucauaCGCGUGUCCGACggCUG- -5'
miRNA: 3'- -CGUUUCAUACGCGUGUCCGACGGCUG- -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 | |||||||
| 10670 | 3' | -53.2 | NC_002730.1 | + | 27661 | 0.66 | 0.707567 |
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Target: 5'- aGC-AGGUGuuccuguugcuUGuCGUACuGGCUGCUGAUa -3' miRNA: 3'- -CGuUUCAU-----------AC-GCGUGuCCGACGGCUG- -5' |
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| 10670 | 3' | -53.2 | NC_002730.1 | + | 19757 | 0.66 | 0.696169 |
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Target: 5'- -gAAAGUAUgcaaGCGCcCAGGUaUGCCGGa -3' miRNA: 3'- cgUUUCAUA----CGCGuGUCCG-ACGGCUg -5' |
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| 10670 | 3' | -53.2 | NC_002730.1 | + | 23001 | 0.73 | 0.317519 |
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Target: 5'- --------aGCGCACAGGUUGuuGACa -3' miRNA: 3'- cguuucauaCGCGUGUCCGACggCUG- -5' |
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| 10670 | 3' | -53.2 | NC_002730.1 | + | 20265 | 1.13 | 0.000429 |
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Target: 5'- cGCAAAGUAUGCGCACAGGCUGCCGACg -3' miRNA: 3'- -CGUUUCAUACGCGUGUCCGACGGCUG- -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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