miRNA: 3'- aaGCUCugGCA-GUaGUGCACCG-CCaa -5'
miRNA: 3'- aAGCUc---UGGCAGUa-----------GugCACCGCCAa -5'
miRNA: 3'- aaGCUC------UGGCAGUAGUgCACCGCCaa -5'
miRNA: 3'- aAGCUCUGGCaGUAGuGCaCCGCCAa -5'
miRNA: 3'- aAGCUCUGGCA-GUAGUGC-------ACCGCcaa -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 | |||||||
| 23360 | 5' | -55.9 | NC_005259.1 | + | 24258 | 0.66 | 0.716643 |
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Target: 5'- -gCGAGugCGUgCA-CGCGUGGCuGGa- -3' miRNA: 3'- aaGCUCugGCA-GUaGUGCACCG-CCaa -5' |
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| 23360 | 5' | -55.9 | NC_005259.1 | + | 66448 | 0.66 | 0.714519 |
|
Target: 5'- cUCGAaaguGCCGUCGaacucggugacgCugGUGGCGGUg -3' miRNA: 3'- aAGCUc---UGGCAGUa-----------GugCACCGCCAa -5' |
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| 23360 | 5' | -55.9 | NC_005259.1 | + | 50262 | 0.66 | 0.705994 |
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Target: 5'- -aCGGGcuacucGCUGUCGUCG-GUGGCGGg- -3' miRNA: 3'- aaGCUC------UGGCAGUAGUgCACCGCCaa -5' |
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| 23360 | 5' | -55.9 | NC_005259.1 | + | 1546 | 0.68 | 0.597345 |
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Target: 5'- aUCGGGGCCG-CGUU-CGgGGCGGUg -3' miRNA: 3'- aAGCUCUGGCaGUAGuGCaCCGCCAa -5' |
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| 23360 | 5' | -55.9 | NC_005259.1 | + | 42133 | 0.68 | 0.585402 |
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Target: 5'- gUCGAGACCGUaCGUCGCGcccgcguUGGUGc-- -3' miRNA: 3'- aAGCUCUGGCA-GUAGUGC-------ACCGCcaa -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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