miRNA: 3'- -UCgUUC-AUGaa-GUUCCGGUAGUAGag -5'
miRNA: 3'- -UCGUUCAU----GAagUUCCGGuagUAGAG- -5'
miRNA: 3'- -UCGuUCAUG------------AAGU----UCCgGUAGUAGAG- -5'
miRNA: 3'- -UCGUUCAUGAAGUUCCGGUAGUAGAG- -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 | |||||||
| 32330 | 5' | -48.6 | NC_007024.1 | + | 685 | 0.66 | 0.963601 |
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Target: 5'- gAGgAAGaUGCgcgUAAGGUCAUCAUCg- -3' miRNA: 3'- -UCgUUC-AUGaa-GUUCCGGUAGUAGag -5' |
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| 32330 | 5' | -48.6 | NC_007024.1 | + | 53888 | 0.66 | 0.959608 |
|
Target: 5'- uAGCGAGUGugccCUggAGGGCCugaAUCUCu -3' miRNA: 3'- -UCGUUCAU----GAagUUCCGGuagUAGAG- -5' |
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| 32330 | 5' | -48.6 | NC_007024.1 | + | 8537 | 0.67 | 0.923194 |
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Target: 5'- aGGCcAGUGCguugcccucgauUUCGgugaAGGgCAUCAUCUCg -3' miRNA: 3'- -UCGuUCAUG------------AAGU----UCCgGUAGUAGAG- -5' |
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| 32330 | 5' | -48.6 | NC_007024.1 | + | 47302 | 1.12 | 0.002595 |
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Target: 5'- gAGCAAGUACUUCAAGGCCAUCAUCUCg -3' miRNA: 3'- -UCGUUCAUGAAGUUCCGGUAGUAGAG- -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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