miRNA: 3'- gACGCGAUUGUcGGAGAACGGA--CUAg -5'
miRNA: 3'- gaCGCGAUUGuCG-GAGaa------CGG-ACUAG- -5'
miRNA: 3'- gaCGCGAUUG-UCGGAGaa--CgGACUAG- -5'
miRNA: 3'- -GACGCgaUUGUCGGAGaa-CGGACUAg -5'
miRNA: 3'- -GACGCGAUUGUCGGAGAACGGACUAG- -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 | |||||||
| 8773 | 3' | -53.2 | NC_002371.2 | + | 10196 | 0.66 | 0.705841 |
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Target: 5'- uUGCGUUAAUA-UCUCUUGCCUuuGGUg -3' miRNA: 3'- gACGCGAUUGUcGGAGAACGGA--CUAg -5' |
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| 8773 | 3' | -53.2 | NC_002371.2 | + | 6608 | 0.68 | 0.590273 |
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Target: 5'- -cGCGCUGACuGCgCUUgagcgaagGCCgUGAUCa -3' miRNA: 3'- gaCGCGAUUGuCG-GAGaa------CGG-ACUAG- -5' |
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| 8773 | 3' | -53.2 | NC_002371.2 | + | 39535 | 0.68 | 0.544507 |
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Target: 5'- -aGUGCUGGCgAGCCUCggugGgCUGGUUu -3' miRNA: 3'- gaCGCGAUUG-UCGGAGaa--CgGACUAG- -5' |
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| 8773 | 3' | -53.2 | NC_002371.2 | + | 32257 | 0.71 | 0.387162 |
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Target: 5'- aCUGCGggAACAGUUUUgagGCCUGAUg -3' miRNA: 3'- -GACGCgaUUGUCGGAGaa-CGGACUAg -5' |
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| 8773 | 3' | -53.2 | NC_002371.2 | + | 38061 | 1.1 | 0.000709 |
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Target: 5'- aCUGCGCUAACAGCCUCUUGCCUGAUCu -3' miRNA: 3'- -GACGCGAUUGUCGGAGAACGGACUAG- -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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