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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 | |||||||
| 31553 | 5' | -45.6 | NC_006820.1 | + | 22545 | 0.66 | 1 |
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Target: 5'- -aUGCGAUAGgaggaGGUGAGAgUGAUGGa -3' miRNA: 3'- ggACGCUGUUag---CUAUUCUaGCUACU- -5' |
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| 31553 | 5' | -45.6 | NC_006820.1 | + | 54657 | 0.66 | 0.999999 |
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Target: 5'- uCCUGUGGCAA-C-AUGGGAcuuugccauggucuUCGAUGAc -3' miRNA: 3'- -GGACGCUGUUaGcUAUUCU--------------AGCUACU- -5' |
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| 31553 | 5' | -45.6 | NC_006820.1 | + | 150490 | 0.66 | 0.999999 |
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Target: 5'- aCUGCGuuCAAaguaGAauUAAGAUUGAUGAa -3' miRNA: 3'- gGACGCu-GUUag--CU--AUUCUAGCUACU- -5' |
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| 31553 | 5' | -45.6 | NC_006820.1 | + | 108581 | 0.67 | 0.999997 |
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Target: 5'- gCUGCuACAAUUGAUAGuAUUGAUGc -3' miRNA: 3'- gGACGcUGUUAGCUAUUcUAGCUACu -5' |
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| 31553 | 5' | -45.6 | NC_006820.1 | + | 19527 | 0.67 | 0.999996 |
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Target: 5'- aCCU-UGACAAUCGAUAGGGUgCG-UGc -3' miRNA: 3'- -GGAcGCUGUUAGCUAUUCUA-GCuACu -5' |
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| 31553 | 5' | -45.6 | NC_006820.1 | + | 26897 | 0.68 | 0.999968 |
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Target: 5'- aCUgGCGACuuAAUCGuUAAGAagGAUGAu -3' miRNA: 3'- gGA-CGCUG--UUAGCuAUUCUagCUACU- -5' |
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| 31553 | 5' | -45.6 | NC_006820.1 | + | 22359 | 1.13 | 0.025471 |
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Target: 5'- gCCUGCGACAAUCGAUAAGAUCGAUGAa -3' miRNA: 3'- -GGACGCUGUUAGCUAUUCUAGCUACU- -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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