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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 | |||||||
| 15523 | 5' | -52.6 | NC_004001.2 | + | 10102 | 0.67 | 0.673646 |
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Target: 5'- -gAGCuCGUgcgcccugGUCACCAGACAguuaacuggUCAGUCa -3' miRNA: 3'- agUCG-GCG--------CAGUGGUCUGU---------AGUUAGc -5' |
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| 15523 | 5' | -52.6 | NC_004001.2 | + | 30225 | 0.67 | 0.662127 |
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Target: 5'- aCGGCCGCGUC-UCAGaACAgCGAcUCGc -3' miRNA: 3'- aGUCGGCGCAGuGGUC-UGUaGUU-AGC- -5' |
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| 15523 | 5' | -52.6 | NC_004001.2 | + | 17862 | 0.67 | 0.662127 |
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Target: 5'- gCGGUucaucuacgCGCGUCACCAG-CGUCucuucaAAUCGg -3' miRNA: 3'- aGUCG---------GCGCAGUGGUCuGUAG------UUAGC- -5' |
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| 15523 | 5' | -52.6 | NC_004001.2 | + | 8899 | 0.68 | 0.639008 |
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Target: 5'- aCAGCCGCGUCuggaacgaGgCGGGCAUgAAUg- -3' miRNA: 3'- aGUCGGCGCAG--------UgGUCUGUAgUUAgc -5' |
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| 15523 | 5' | -52.6 | NC_004001.2 | + | 13219 | 0.69 | 0.55845 |
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Target: 5'- cUCAGCCGCGguagCACCcaugaccccGGACAgCGAUg- -3' miRNA: 3'- -AGUCGGCGCa---GUGG---------UCUGUaGUUAgc -5' |
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| 15523 | 5' | -52.6 | NC_004001.2 | + | 27212 | 1.09 | 0.001035 |
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Target: 5'- cUCAGCCGCGUCACCAGACAUCAAUCGu -3' miRNA: 3'- -AGUCGGCGCAGUGGUCUGUAGUUAGC- -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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