miRNA: 3'- -UUGacUUUGUCGAa-UGGGGUGCGAUG- -5'
miRNA: 3'- -UUGACuUUGUCGA---------------AUGG-GGUGcGAUG- -5'
miRNA: 3'- uuGACuUUGUCGAAUGGGGUGCGaug -5'
miRNA: 3'- -UUGACUUUGUCGa-------------AUGGGGUGCGAUG- -5'
miRNA: 3'- -UUGACUUUGUCGAAUGGGGUGCGAUG- -5'
Results 1 - 5 of 5 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 | |||||||
| 17748 | 3' | -50.8 | NC_004629.1 | + | 130635 | 0.66 | 0.998585 |
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Target: 5'- uAAC--GAACGGCUagACCUCAUGUUACg -3' miRNA: 3'- -UUGacUUUGUCGAa-UGGGGUGCGAUG- -5' |
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| 17748 | 3' | -50.8 | NC_004629.1 | + | 165337 | 0.66 | 0.997745 |
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Target: 5'- aGACUG-AGCAGCUagaccauggcuaugaUGCCaCCGCaCUACu -3' miRNA: 3'- -UUGACuUUGUCGA---------------AUGG-GGUGcGAUG- -5' |
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| 17748 | 3' | -50.8 | NC_004629.1 | + | 208281 | 0.66 | 0.997584 |
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Target: 5'- -gUUGuGAUAGUUUACCCCAUGUg-- -3' miRNA: 3'- uuGACuUUGUCGAAUGGGGUGCGaug -5' |
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| 17748 | 3' | -50.8 | NC_004629.1 | + | 239577 | 0.74 | 0.888894 |
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Target: 5'- uAGCUGAGAUGGCgcaauuauucgaccUAUCUCACGCUGCu -3' miRNA: 3'- -UUGACUUUGUCGa-------------AUGGGGUGCGAUG- -5' |
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| 17748 | 3' | -50.8 | NC_004629.1 | + | 19414 | 1.09 | 0.013522 |
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Target: 5'- gAACUGAAACAGCUUACCCCACGCUACg -3' miRNA: 3'- -UUGACUUUGUCGAAUGGGGUGCGAUG- -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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