miRNA: 3'- cauCUGCCGGCUCaGGgCGGU---AgCUC- -5'
miRNA: 3'- -CAUCUGCCGGCUCAGGGCGGUAGCUC- -5'
miRNA: 3'- caUCUGC-CGGCUCAGGG---------------CGGU--------AGCUc -5'
miRNA: 3'- caUCUGCCgGCUCaGgGCGGUAGCUc -5'
miRNA: 3'- caUCUGCCGgC--UCA---GGGCGGUAGCUc -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 11418 | 3' | -58.3 | NC_003085.1 | + | 40843 | 0.66 | 0.503806 |
|
Target: 5'- --cGGCGGCCGGG-CUgGCCAaccUgGAGg -3' miRNA: 3'- cauCUGCCGGCUCaGGgCGGU---AgCUC- -5' |
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| 11418 | 3' | -58.3 | NC_003085.1 | + | 43756 | 1.09 | 0.000473 |
|
Target: 5'- aGUAGACGGCCGAGUCCCGCCAUCGAGg -3' miRNA: 3'- -CAUCUGCCGGCUCAGGGCGGUAGCUC- -5' |
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| 11418 | 3' | -58.3 | NC_003085.1 | + | 44106 | 0.68 | 0.392283 |
|
Target: 5'- -cGGACGcGCCGAGUCCCugguccuucuccgcgGCCAcgcgcuucUCGGu -3' miRNA: 3'- caUCUGC-CGGCUCAGGG---------------CGGU--------AGCUc -5' |
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| 11418 | 3' | -58.3 | NC_003085.1 | + | 45594 | 0.68 | 0.43463 |
|
Target: 5'- -cAGACGG-CGGG-CgCGCCGUCGAc -3' miRNA: 3'- caUCUGCCgGCUCaGgGCGGUAGCUc -5' |
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| 11418 | 3' | -58.3 | NC_003085.1 | + | 46354 | 0.66 | 0.534899 |
|
Target: 5'- -gAGAUGGCgGcaAGUucaUCCGCCGUCGGc -3' miRNA: 3'- caUCUGCCGgC--UCA---GGGCGGUAGCUc -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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