miRNA: 3'- -UCUUUAUUUACCUUCAGACACCGCUG- -5'
miRNA: 3'- -UCUUUAUuuacCUUCAGAcACCGCUG- -5'
miRNA: 3'- -UCUUUAU--UUACCUUCAGAcACCGcUG- -5'
miRNA: 3'- ucUUUAUUUACCUUCAGAcaccGCUG- -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 | |||||||
| 28297 | 3' | -45.3 | NC_005902.1 | + | 181310 | 1.11 | 0.02655 |
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Target: 5'- aAGAAAUAAAUGGAAGUCUGUGGCGACu -3' miRNA: 3'- -UCUUUAUUUACCUUCAGACACCGCUG- -5' |
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| 28297 | 3' | -45.3 | NC_005902.1 | + | 85200 | 0.68 | 0.999956 |
|
Target: 5'- aAGAAGUAcua-GAAGUCUaUGGUGACc -3' miRNA: 3'- -UCUUUAUuuacCUUCAGAcACCGCUG- -5' |
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| 28297 | 3' | -45.3 | NC_005902.1 | + | 149124 | 0.67 | 0.999983 |
|
Target: 5'- aAGAAAUAaaAAUGGAAGUUUaUGGUaACc -3' miRNA: 3'- -UCUUUAU--UUACCUUCAGAcACCGcUG- -5' |
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| 28297 | 3' | -45.3 | NC_005902.1 | + | 4694 | 0.66 | 0.999994 |
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Target: 5'- -aAGAUAAAUGGAAGUCUauaaCGACu -3' miRNA: 3'- ucUUUAUUUACCUUCAGAcaccGCUG- -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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