miRNA: 3'- -CCUGCUAAAaCAAGAGGucaua-GACA- -5'
miRNA: 3'- cCUGCUAAAACAAG---------AGG--UCAUAGACA- -5'
miRNA: 3'- -CCUGCuaa-AACaag--AGGUCAUAGACA- -5'
miRNA: 3'- -CCUGCUAAAACAAGAGGUCAUAGACA- -5'
Results 1 - 4 of 4 are showing below:
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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 | |||||||
| 23517 | 5' | -44.5 | NC_005260.1 | + | 157419 | 0.67 | 1 |
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Target: 5'- aGGAUGGUUUaGUUCUCCuaaagcCUGUc -3' miRNA: 3'- -CCUGCUAAAaCAAGAGGucaua-GACA- -5' |
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| 23517 | 5' | -44.5 | NC_005260.1 | + | 57718 | 0.73 | 0.999084 |
|
Target: 5'- uGGCGAUUUUGUUCaugauauuuUCCucAGUGUUUGUg -3' miRNA: 3'- cCUGCUAAAACAAG---------AGG--UCAUAGACA- -5' |
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| 23517 | 5' | -44.5 | NC_005260.1 | + | 58450 | 0.76 | 0.990377 |
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Target: 5'- aGGACGuccgUUGguagaUCCAGUGUCUGUu -3' miRNA: 3'- -CCUGCuaa-AACaag--AGGUCAUAGACA- -5' |
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| 23517 | 5' | -44.5 | NC_005260.1 | + | 15479 | 1.12 | 0.040882 |
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Target: 5'- uGGACGAUUUUGUUCUCCAGUAUCUGUa -3' miRNA: 3'- -CCUGCUAAAACAAGAGGUCAUAGACA- -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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