miRNA: 3'- -GCUUAGCAGUaGaag-GCAACGcCGCC- -5'
miRNA: 3'- -GCuuAGCAGUAGa---AGGCAAc---GCCGCc -5'
miRNA: 3'- gCuuAG-CAGUAGAAG-GCAa-------CGCCGCC- -5'
miRNA: 3'- -GCUUAGCAGUAGAAGGCAACGCCGCC- -5'
Results 1 - 4 of 4 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 | |||||||
| 24811 | 3' | -51.2 | NC_005284.1 | + | 54217 | 0.66 | 0.933364 |
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Target: 5'- cCGAAUCGUCGcCgaaaUGUUGC-GCGGc -3' miRNA: 3'- -GCUUAGCAGUaGaag-GCAACGcCGCC- -5' |
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| 24811 | 3' | -51.2 | NC_005284.1 | + | 46835 | 0.69 | 0.820892 |
|
Target: 5'- cCGuuUCGUCGUCgcccUCCGUUacccCGGCGa -3' miRNA: 3'- -GCuuAGCAGUAGa---AGGCAAc---GCCGCc -5' |
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| 24811 | 3' | -51.2 | NC_005284.1 | + | 28488 | 0.69 | 0.811465 |
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Target: 5'- uGuuUCaGUCAUCUUCuCGUcggugugcGCGGCGGc -3' miRNA: 3'- gCuuAG-CAGUAGAAG-GCAa-------CGCCGCC- -5' |
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| 24811 | 3' | -51.2 | NC_005284.1 | + | 50083 | 1.11 | 0.002556 |
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Target: 5'- gCGAAUCGUCAUCUUCCGUUGCGGCGGc -3' miRNA: 3'- -GCUUAGCAGUAGAAGGCAACGCCGCC- -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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