miRNA: 3'- uaaUGGUAG-AGGGaCGCCUgUCACgG- -5'
miRNA: 3'- uaaUGGUa--GAGGGaCGCCugUCaCGG- -5'
miRNA: 3'- -UAAugGUA--GAGGGAcGCCUGUCaCGG- -5'
miRNA: 3'- uaAUGGUaGa---------GGGACGCCUGUCACGg -5'
miRNA: 3'- -UAAUGGUAGAGGGACGCCUGUCACGG- -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 | |||||||
| 4285 | 3' | -54.5 | NC_001710.1 | + | 7740 | 0.66 | 0.246456 |
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Target: 5'- --gGCCAUCuUCCCcGCGGG-GGUGgCu -3' miRNA: 3'- uaaUGGUAG-AGGGaCGCCUgUCACgG- -5' |
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| 4285 | 3' | -54.5 | NC_001710.1 | + | 7429 | 0.66 | 0.225055 |
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Target: 5'- --gGCCAagcCUCCC-GUGGugAG-GCCg -3' miRNA: 3'- uaaUGGUa--GAGGGaCGCCugUCaCGG- -5' |
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| 4285 | 3' | -54.5 | NC_001710.1 | + | 2078 | 0.67 | 0.186975 |
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Target: 5'- gGUUugCAUggCUCUCUuCGGGCAG-GCCu -3' miRNA: 3'- -UAAugGUA--GAGGGAcGCCUGUCaCGG- -5' |
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| 4285 | 3' | -54.5 | NC_001710.1 | + | 3103 | 0.73 | 0.072799 |
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Target: 5'- -aUGCCG-CgaggacuuugUCCUGCGGGCAGUGCg -3' miRNA: 3'- uaAUGGUaGa---------GGGACGCCUGUCACGg -5' |
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| 4285 | 3' | -54.5 | NC_001710.1 | + | 4552 | 1.1 | 0.000068 |
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Target: 5'- cAUUACCAUCUCCCUGCGGACAGUGCCu -3' miRNA: 3'- -UAAUGGUAGAGGGACGCCUGUCACGG- -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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