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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 | |||||||
| 21886 | 3' | -54.5 | NC_004902.1 | + | 35841 | 0.66 | 0.679089 |
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Target: 5'- uGCCCUUGUUC--GACCAgcaaccaGGAGGg- -3' miRNA: 3'- gCGGGAACAAGgaCUGGUg------CCUCUau -5' |
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| 21886 | 3' | -54.5 | NC_004902.1 | + | 21276 | 0.67 | 0.633954 |
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Target: 5'- uGUCCUUGUgCUgUGACCGuggaGGAGAUAg -3' miRNA: 3'- gCGGGAACAaGG-ACUGGUg---CCUCUAU- -5' |
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| 21886 | 3' | -54.5 | NC_004902.1 | + | 21174 | 0.67 | 0.633954 |
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Target: 5'- uGUCCUUGUgCUgUGACCGuggaGGAGAUAg -3' miRNA: 3'- gCGGGAACAaGG-ACUGGUg---CCUCUAU- -5' |
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| 21886 | 3' | -54.5 | NC_004902.1 | + | 21072 | 0.67 | 0.633954 |
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Target: 5'- uGUCCUUGUgCUgUGACCGuggaGGAGAUAg -3' miRNA: 3'- gCGGGAACAaGG-ACUGGUg---CCUCUAU- -5' |
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| 21886 | 3' | -54.5 | NC_004902.1 | + | 1100 | 0.69 | 0.490192 |
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Target: 5'- uGUUCUUGUUCUUG-CCACGGuucuGGUGg -3' miRNA: 3'- gCGGGAACAAGGACuGGUGCCu---CUAU- -5' |
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| 21886 | 3' | -54.5 | NC_004902.1 | + | 25142 | 0.78 | 0.142626 |
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Target: 5'- gCGCCCUUGUUgCUUGACauugGCGGAGAg- -3' miRNA: 3'- -GCGGGAACAA-GGACUGg---UGCCUCUau -5' |
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| 21886 | 3' | -54.5 | NC_004902.1 | + | 25031 | 1.07 | 0.00112 |
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Target: 5'- gCGCCCUUGUUCCUGACCACGGAGAUAg -3' miRNA: 3'- -GCGGGAACAAGGACUGGUGCCUCUAU- -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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