miRNA: 3'- aaGCAGUCUGCAg--------CA---UGUAG-GGUACC- -5'
miRNA: 3'- aaGCAGUCUGCAg--------CA---UGUAG-GGUACC- -5'
miRNA: 3'- aaGCAGUCUGCaGCa--UGUAGG-GUA-CC- -5'
miRNA: 3'- aAGCAGUCu--GCAGCaUGUaGGgUACC- -5'
miRNA: 3'- -AAGCAGUCUGCAGCAUGUAGGGUACC- -5'
Results 1 - 5 of 5 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 | |||||||
| 17439 | 5' | -51.3 | NC_004453.1 | + | 38 | 0.66 | 0.781907 |
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Target: 5'- -aCGUCAGACGUaaguugcaaGUgccACGUCgUCGUGGg -3' miRNA: 3'- aaGCAGUCUGCAg--------CA---UGUAG-GGUACC- -5' |
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| 17439 | 5' | -51.3 | NC_004453.1 | + | 33464 | 0.66 | 0.781907 |
|
Target: 5'- -aCGUCAGACGUaaguugcaaGUgccACGUCgUCGUGGg -3' miRNA: 3'- aaGCAGUCUGCAg--------CA---UGUAG-GGUACC- -5' |
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| 17439 | 5' | -51.3 | NC_004453.1 | + | 13560 | 0.69 | 0.658383 |
|
Target: 5'- -gCGUCAGACGcCGaagACGUCCaCGUaGGc -3' miRNA: 3'- aaGCAGUCUGCaGCa--UGUAGG-GUA-CC- -5' |
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| 17439 | 5' | -51.3 | NC_004453.1 | + | 20529 | 0.7 | 0.576875 |
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Target: 5'- gUCGUCGGuguCGUCG-ACA-CCgGUGGg -3' miRNA: 3'- aAGCAGUCu--GCAGCaUGUaGGgUACC- -5' |
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| 17439 | 5' | -51.3 | NC_004453.1 | + | 6722 | 1.08 | 0.001708 |
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Target: 5'- aUUCGUCAGACGUCGUACAUCCCAUGGc -3' miRNA: 3'- -AAGCAGUCUGCAGCAUGUAGGGUACC- -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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