miRNA: 3'- -GC-GACUUCGCaa--------GCCGCCuGCUUUac -5'
miRNA: 3'- gcgaCUUCGCaa-GCCGCCUGCUuuAC- -5'
miRNA: 3'- gCGACU-----UCGCaaGc-CGCCUGCUUUac -5'
miRNA: 3'- -GCGACuuCGcaaGCCGCCUGCUuuac -5'
miRNA: 3'- -GCGACUUCGCAAGCCGCCUGCUUUAC- -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 | |||||||
| 17452 | 5' | -52 | NC_004453.1 | + | 13514 | 0.67 | 0.715812 |
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Target: 5'- gCGaCUGAAGCGguggccgaagCGGUGGcCGAAAc- -3' miRNA: 3'- -GC-GACUUCGCaa--------GCCGCCuGCUUUac -5' |
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| 17452 | 5' | -52 | NC_004453.1 | + | 15805 | 0.67 | 0.715812 |
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Target: 5'- ---aGAGGCGgcaCGGUGGGCGGuuUGa -3' miRNA: 3'- gcgaCUUCGCaa-GCCGCCUGCUuuAC- -5' |
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| 17452 | 5' | -52 | NC_004453.1 | + | 21743 | 0.68 | 0.670022 |
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Target: 5'- aGCUGAugaaaGGCGagCcuGCGGACGAGAg- -3' miRNA: 3'- gCGACU-----UCGCaaGc-CGCCUGCUUUac -5' |
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| 17452 | 5' | -52 | NC_004453.1 | + | 31132 | 0.71 | 0.487636 |
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Target: 5'- gCGCUGggGC---UGGCGGAUGAc--- -3' miRNA: 3'- -GCGACuuCGcaaGCCGCCUGCUuuac -5' |
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| 17452 | 5' | -52 | NC_004453.1 | + | 14110 | 1.1 | 0.001129 |
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Target: 5'- gCGCUGAAGCGUUCGGCGGACGAAAUGa -3' miRNA: 3'- -GCGACUUCGCAAGCCGCCUGCUUUAC- -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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