miRNA: 3'- -AACCUG-UGCAAGCU---------GAGGU------------CCUGCCU- -5'
miRNA: 3'- aaCCUGUGCaaGCUGagGUC-CUGCCU- -5'
miRNA: 3'- -AACCUGUGCAAGCUGAGGUCCUGCCU- -5'
Results 21 - 23 of 23 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 | |||||||
| 10874 | 3' | -55.1 | NC_002794.1 | + | 148853 | 0.67 | 0.935461 |
|
Target: 5'- cUUGGGCuACGUUCGAgagcaccgcUUCCAacaacucgucuuGGGCGGGc -3' miRNA: 3'- -AACCUG-UGCAAGCU---------GAGGU------------CCUGCCU- -5' |
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| 10874 | 3' | -55.1 | NC_002794.1 | + | 19454 | 0.67 | 0.91979 |
|
Target: 5'- -cGGGCACGagCGGCggCGGcGGCGGGa -3' miRNA: 3'- aaCCUGUGCaaGCUGagGUC-CUGCCU- -5' |
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| 10874 | 3' | -55.1 | NC_002794.1 | + | 30468 | 1.07 | 0.006552 |
|
Target: 5'- cUUGGACACGUUCGACUCCAGGACGGAg -3' miRNA: 3'- -AACCUGUGCAAGCUGAGGUCCUGCCU- -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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