miRNA: 3'- aUACGAgGAUCg------CCUCAAUUAGGAag -5'
miRNA: 3'- auaCGAGGAUcGCCUCAAU-UAGG-AAG- -5'
miRNA: 3'- -AUACGAGGAUCGCCUCAAUUAGGAAG- -5'
miRNA: 3'- -AUACGAGGAUCGCCUCAAUUAGGAAG- -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 | |||||||
| 3371 | 3' | -49.2 | NC_001559.1 | + | 124341 | 0.68 | 0.993567 |
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Target: 5'- gAUGCUgCUAGacauuauGGAGUUAAUCUUa- -3' miRNA: 3'- aUACGAgGAUCg------CCUCAAUUAGGAag -5' |
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| 3371 | 3' | -49.2 | NC_001559.1 | + | 175495 | 0.68 | 0.991425 |
|
Target: 5'- --aGCUUCUAcCGGAGUUAuAUCCgUUCu -3' miRNA: 3'- auaCGAGGAUcGCCUCAAU-UAGG-AAG- -5' |
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| 3371 | 3' | -49.2 | NC_001559.1 | + | 182108 | 1.1 | 0.011941 |
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Target: 5'- gUAUGCUCCUAGCGGAGUUAAUCCUUCg -3' miRNA: 3'- -AUACGAGGAUCGCCUCAAUUAGGAAG- -5' |
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| 3371 | 3' | -49.2 | NC_001559.1 | + | 9630 | 1.1 | 0.011941 |
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Target: 5'- gUAUGCUCCUAGCGGAGUUAAUCCUUCg -3' miRNA: 3'- -AUACGAGGAUCGCCUCAAUUAGGAAG- -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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