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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
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P value |
| Predicted miRNA align pattern | |||||||
| 1186 | 3' | -51.2 | NC_001132.2 | + | 33207 | 0.67 | 0.98533 |
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Target: 5'- aCGACGuuGaGAUucuucguauauaucgAGGGGCGCGGGAGGa -3' miRNA: 3'- -GUUGCucC-CUA---------------UCCUUGCGCUCUUCa -5' |
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| 1186 | 3' | -51.2 | NC_001132.2 | + | 10838 | 0.68 | 0.975048 |
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Target: 5'- --cUGAGGGAcgcccuccagagacUGGGggUGCGAGAc-- -3' miRNA: 3'- guuGCUCCCU--------------AUCCuuGCGCUCUuca -5' |
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| 1186 | 3' | -51.2 | NC_001132.2 | + | 44527 | 0.68 | 0.973153 |
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Target: 5'- cCGACGAGGGGaaccaacgUAGGAuACGCGAc---- -3' miRNA: 3'- -GUUGCUCCCU--------AUCCU-UGCGCUcuuca -5' |
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| 1186 | 3' | -51.2 | NC_001132.2 | + | 2149 | 0.68 | 0.967171 |
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Target: 5'- gAACGAGcGGcagcgAGG-GCGCGGGAGGa -3' miRNA: 3'- gUUGCUC-CCua---UCCuUGCGCUCUUCa -5' |
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| 1186 | 3' | -51.2 | NC_001132.2 | + | 20640 | 0.77 | 0.631561 |
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Target: 5'- ---aGAGGGAcaaUGGGAACGCGGGGAa- -3' miRNA: 3'- guugCUCCCU---AUCCUUGCGCUCUUca -5' |
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| 1186 | 3' | -51.2 | NC_001132.2 | + | 157221 | 1.08 | 0.009929 |
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Target: 5'- cCAACGAGGGAUAGGAACGCGAGAAGUa -3' miRNA: 3'- -GUUGCUCCCUAUCCUUGCGCUCUUCA- -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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