miRNA: 3'- caGAC---CCUUAAUGuaCGCU-CCGCaGU- -5'
miRNA: 3'- -CAGa---CCCUUaaUGUa-----CGCUCCgCAGU- -5'
miRNA: 3'- cAGACCCUuaa-UGUACGCuCCGCaGU- -5'
miRNA: 3'- -CAGACCCUUAAUGUACGCUCCGCAGU- -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 | |||||||
| 24046 | 5' | -51.5 | NC_005262.1 | + | 63664 | 0.66 | 0.920098 |
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Target: 5'- -aCUGgcuGGAAUUGCcgGCGAcGGCGaCGa -3' miRNA: 3'- caGAC---CCUUAAUGuaCGCU-CCGCaGU- -5' |
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| 24046 | 5' | -51.5 | NC_005262.1 | + | 57272 | 0.66 | 0.885564 |
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Target: 5'- gGUCgagcGGGAGcgACAcgagcgGCGAGGgGUCGc -3' miRNA: 3'- -CAGa---CCCUUaaUGUa-----CGCUCCgCAGU- -5' |
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| 24046 | 5' | -51.5 | NC_005262.1 | + | 42772 | 0.7 | 0.712981 |
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Target: 5'- uUCUGGGGccacGCGUGCG-GGCGcCAc -3' miRNA: 3'- cAGACCCUuaa-UGUACGCuCCGCaGU- -5' |
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| 24046 | 5' | -51.5 | NC_005262.1 | + | 39478 | 1.09 | 0.002623 |
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Target: 5'- cGUCUGGGAAUUACAUGCGAGGCGUCAc -3' miRNA: 3'- -CAGACCCUUAAUGUACGCUCCGCAGU- -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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