miRNA: 3'- -UCCCUag-CGGGAgU----GGCCA-CAGGACA- -5'
miRNA: 3'- -UCCCUAGCGgGAGUgGCCa-CAGGa----CA- -5'
miRNA: 3'- -UCC--CUAGCGGgAGUGGCCACaGGaca -5'
miRNA: 3'- -UCCCUAGCGGGAGUGGCCACAGGACA- -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 | |||||||
| 19674 | 3' | -59.8 | NC_004686.1 | + | 21348 | 0.66 | 0.482073 |
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Target: 5'- uGGGGAcgaGCCCUgGuuguCCGGUgGUCUUGUc -3' miRNA: 3'- -UCCCUag-CGGGAgU----GGCCA-CAGGACA- -5' |
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| 19674 | 3' | -59.8 | NC_004686.1 | + | 11016 | 0.66 | 0.452853 |
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Target: 5'- uGGGGGUCGUgCUCA-CGGcgGUCCgaucgGUg -3' miRNA: 3'- -UCCCUAGCGgGAGUgGCCa-CAGGa----CA- -5' |
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| 19674 | 3' | -59.8 | NC_004686.1 | + | 22623 | 0.69 | 0.315425 |
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Target: 5'- cGGGcaGAUCGCCaUCACCGGUGgCCa-- -3' miRNA: 3'- -UCC--CUAGCGGgAGUGGCCACaGGaca -5' |
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| 19674 | 3' | -59.8 | NC_004686.1 | + | 24825 | 1.06 | 0.000584 |
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Target: 5'- gAGGGAUCGCCCUCACCGGUGUCCUGUc -3' miRNA: 3'- -UCCCUAGCGGGAGUGGCCACAGGACA- -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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