miRNA: 3'- -UugGaCG-AGC-CGCaGUAGGACCAGUa -5'
miRNA: 3'- uUGGACg-AGCCGCAGuAGgA-CCAGUa -5'
miRNA: 3'- -UUGG-ACG--AGCCGCaGUAG-GACCAGUa -5'
miRNA: 3'- -UUGGACGAGCCGCAGUAGGACCAGUA- -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 | |||||||
| 27668 | 5' | -57.4 | NC_005882.1 | + | 17108 | 0.66 | 0.437899 |
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Target: 5'- aGugCgGCgUCGaGCG-CGUCCUGGUCGg -3' miRNA: 3'- -UugGaCG-AGC-CGCaGUAGGACCAGUa -5' |
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| 27668 | 5' | -57.4 | NC_005882.1 | + | 14142 | 0.66 | 0.437899 |
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Target: 5'- cGCCUGgaUCGGCGUCuUCgUcGGUCGc -3' miRNA: 3'- uUGGACg-AGCCGCAGuAGgA-CCAGUa -5' |
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| 27668 | 5' | -57.4 | NC_005882.1 | + | 21896 | 0.66 | 0.408347 |
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Target: 5'- cAACCaUGCgaUCGGCG-CGUUgCUGGUCAg -3' miRNA: 3'- -UUGG-ACG--AGCCGCaGUAG-GACCAGUa -5' |
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| 27668 | 5' | -57.4 | NC_005882.1 | + | 21161 | 1.04 | 0.000662 |
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Target: 5'- cAACCUGCUCGGCGUCAUCCUGGUCAUg -3' miRNA: 3'- -UUGGACGAGCCGCAGUAGGACCAGUA- -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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