miRNA: 3'- -UUGACCGUagCGGUGGGUCGgauaaa -5'
miRNA: 3'- uUGACCGUAgCGG-----UgGGUCGGauaaa -5'
miRNA: 3'- uUGACCGUAGCGGUggGUCGGaUAAa -5'
miRNA: 3'- -UUGACCGUAGCGGUGGGUCGGAUAAA- -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 | |||||||
| 17509 | 5' | -55.6 | NC_004456.1 | + | 29650 | 0.67 | 0.49615 |
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Target: 5'- uGACUGGUAagGUUACCCAGCg----- -3' miRNA: 3'- -UUGACCGUagCGGUGGGUCGgauaaa -5' |
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| 17509 | 5' | -55.6 | NC_004456.1 | + | 30043 | 0.67 | 0.49615 |
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Target: 5'- uGCUGGCGUgGCCcgcauGgCCAGCCa---- -3' miRNA: 3'- uUGACCGUAgCGG-----UgGGUCGGauaaa -5' |
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| 17509 | 5' | -55.6 | NC_004456.1 | + | 27830 | 0.67 | 0.464114 |
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Target: 5'- cACUGGUAUCGCCAggCAGUCcGUUg -3' miRNA: 3'- uUGACCGUAGCGGUggGUCGGaUAAa -5' |
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| 17509 | 5' | -55.6 | NC_004456.1 | + | 27957 | 1.02 | 0.001364 |
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Target: 5'- uAACUGGCAUCGCCACCCAGCCUAUUUu -3' miRNA: 3'- -UUGACCGUAGCGGUGGGUCGGAUAAA- -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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