miRNA: 3'- -UCAGCU--------ACCa--GAGGCUCGuCCAg--CGU- -5'
miRNA: 3'- -UC-AGCuACCAGAGG-----CUCGUCCAGCGu -5'
miRNA: 3'- -UCAGCUACcagagGCUCGUCCAGCGu -5'
miRNA: 3'- -UCAGCUACCAGAGGCUcGUCCAGCGU- -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 | |||||||
| 18011 | 5' | -56.7 | NC_004665.1 | + | 19841 | 0.66 | 0.538729 |
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Target: 5'- aAGUCGAggcccgagUGGgcgCUUCGAGCuGGUaagGCAc -3' miRNA: 3'- -UCAGCU--------ACCa--GAGGCUCGuCCAg--CGU- -5' |
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| 18011 | 5' | -56.7 | NC_004665.1 | + | 29150 | 0.66 | 0.538729 |
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Target: 5'- cAGcUUGuUGGUCUUCggauuGAGCGGGUUGCu -3' miRNA: 3'- -UC-AGCuACCAGAGG-----CUCGUCCAGCGu -5' |
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| 18011 | 5' | -56.7 | NC_004665.1 | + | 2602 | 0.68 | 0.424877 |
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Target: 5'- cAGUCGGUGuuga-UGAGCGGGUCGUg -3' miRNA: 3'- -UCAGCUACcagagGCUCGUCCAGCGu -5' |
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| 18011 | 5' | -56.7 | NC_004665.1 | + | 11960 | 0.96 | 0.004062 |
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Target: 5'- aAGUCGAUGGUCUCCGA-CAGGUCGCAg -3' miRNA: 3'- -UCAGCUACCAGAGGCUcGUCCAGCGU- -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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