miRNA: 3'- -CACuCAu---UGGGUGUAGUa-CCGACuac -5'
miRNA: 3'- -CACUCAUUGGGUguagUAC-CGACUac -5'
miRNA: 3'- caCUCauUGG---------GugUAGUACCGACUAC- -5'
miRNA: 3'- -CACUCAUUGGGUGUAGUACCGACUAC- -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 | |||||||
| 16922 | 5' | -49.9 | NC_004313.1 | + | 1270 | 0.67 | 0.807009 |
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Target: 5'- cGUG-GUuauuGCCCACAUCAgcGGCUGu-- -3' miRNA: 3'- -CACuCAu---UGGGUGUAGUa-CCGACuac -5' |
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| 16922 | 5' | -49.9 | NC_004313.1 | + | 24289 | 0.68 | 0.775428 |
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Target: 5'- uGUGAGUGACCCGa---AUGuGCUGGc- -3' miRNA: 3'- -CACUCAUUGGGUguagUAC-CGACUac -5' |
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| 16922 | 5' | -49.9 | NC_004313.1 | + | 2351 | 0.7 | 0.661155 |
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Target: 5'- -cGGGgcGCUgugcauguuCugGUCGUGGCUGGUGg -3' miRNA: 3'- caCUCauUGG---------GugUAGUACCGACUAC- -5' |
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| 16922 | 5' | -49.9 | NC_004313.1 | + | 11897 | 1.08 | 0.002299 |
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Target: 5'- gGUGAGUAACCCACAUCAUGGCUGAUGu -3' miRNA: 3'- -CACUCAUUGGGUGUAGUACCGACUAC- -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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