miRNA: 3'- gGGGUGACC------GUAACAGuuGGGCGuau -5'
miRNA: 3'- -GGGGUGACCGuaAC-----AGuUGgGCGUAU- -5'
miRNA: 3'- -GGGGUGACCGUaa--CaGUUG-GGCGuau -5'
miRNA: 3'- -GGGGUGACCgUaACAGUUGGgCGUau -5'
miRNA: 3'- -GGGGUGACCGUAACAGUUGGGCGUAU- -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 | |||||||
| 6162 | 5' | -53.9 | NC_001837.1 | + | 3626 | 0.66 | 0.283951 |
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Target: 5'- aCCCAUUGGaccagcCAUUGUCcuCCCGUu-- -3' miRNA: 3'- gGGGUGACC------GUAACAGuuGGGCGuau -5' |
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| 6162 | 5' | -53.9 | NC_001837.1 | + | 4009 | 0.66 | 0.244726 |
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Target: 5'- uCCCCACUGGUucUGgaaaaUCcACgCGCAUAc -3' miRNA: 3'- -GGGGUGACCGuaAC-----AGuUGgGCGUAU- -5' |
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| 6162 | 5' | -53.9 | NC_001837.1 | + | 1379 | 0.68 | 0.191424 |
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Target: 5'- gCCCCACUGGCAaacgGcCGACaCUGUg-- -3' miRNA: 3'- -GGGGUGACCGUaa--CaGUUG-GGCGuau -5' |
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| 6162 | 5' | -53.9 | NC_001837.1 | + | 5825 | 0.73 | 0.079695 |
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Target: 5'- uUCCUGCUGGgAaUGUCAGCCgGCAg- -3' miRNA: 3'- -GGGGUGACCgUaACAGUUGGgCGUau -5' |
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| 6162 | 5' | -53.9 | NC_001837.1 | + | 370 | 1.09 | 9.4e-05 |
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Target: 5'- cCCCCACUGGCAUUGUCAACCCGCAUAg -3' miRNA: 3'- -GGGGUGACCGUAACAGUUGGGCGUAU- -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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