miRNA: 3'- -GGCCGCAGCGGG--GACCGUUUuag-ACc -5'
miRNA: 3'- -GGCCGC-AGCGGGGaCCguuuuaGACC- -5'
miRNA: 3'- gGCCGCAGCgGg---GACCGUUUUa-----------GACC- -5'
miRNA: 3'- -GGCCGC-AGCGGGGAC--CGUuuUAGACC- -5'
miRNA: 3'- -GGCCGCAGCGGGGACCGUUUUAGACC- -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 | |||||||
| 27352 | 3' | -55.8 | NC_005857.1 | + | 8289 | 0.66 | 0.672931 |
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Target: 5'- gCUGGCGUUGUCUggCUGGCAGAugaaUGa -3' miRNA: 3'- -GGCCGCAGCGGG--GACCGUUUuag-ACc -5' |
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| 27352 | 3' | -55.8 | NC_005857.1 | + | 16578 | 0.67 | 0.618532 |
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Target: 5'- aCCGGCGuUCGUCCC-GGag----CUGGu -3' miRNA: 3'- -GGCCGC-AGCGGGGaCCguuuuaGACC- -5' |
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| 27352 | 3' | -55.8 | NC_005857.1 | + | 49670 | 0.68 | 0.562266 |
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Target: 5'- uUGGCGUCGgCaguuCUGGCAAAGguauuugucacgCUGGa -3' miRNA: 3'- gGCCGCAGCgGg---GACCGUUUUa-----------GACC- -5' |
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| 27352 | 3' | -55.8 | NC_005857.1 | + | 30094 | 0.77 | 0.186592 |
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Target: 5'- gCUGGCGuUCGCCCUUGccGCGcuAUCUGGu -3' miRNA: 3'- -GGCCGC-AGCGGGGAC--CGUuuUAGACC- -5' |
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| 27352 | 3' | -55.8 | NC_005857.1 | + | 30756 | 1.12 | 0.00064 |
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Target: 5'- cCCGGCGUCGCCCCUGGCAAAAUCUGGc -3' miRNA: 3'- -GGCCGCAGCGGGGACCGUUUUAGACC- -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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