miRNA: 3'- cAGCGGUAGUGGCAacaCCaCAGUUa -5'
miRNA: 3'- cAGCGGua--------GUGGCaa-CACCACAGUua -5'
miRNA: 3'- caGCGGU-AGUGG-----------CAAC-ACCACAGUUA- -5'
miRNA: 3'- -CAGCGGUAGUGGCAACACCACAGUUA- -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 | |||||||
| 7119 | 3' | -52.3 | NC_001895.1 | + | 8954 | 0.67 | 0.63357 |
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Target: 5'- aUCGCUGUCACCGUcagGGcGUCGGc -3' miRNA: 3'- cAGCGGUAGUGGCAacaCCaCAGUUa -5' |
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| 7119 | 3' | -52.3 | NC_001895.1 | + | 23201 | 0.69 | 0.528804 |
|
Target: 5'- aUCGCCuuaacaaucgCACCGagcGUGGUGUCAu- -3' miRNA: 3'- cAGCGGua--------GUGGCaa-CACCACAGUua -5' |
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| 7119 | 3' | -52.3 | NC_001895.1 | + | 19347 | 0.7 | 0.473292 |
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Target: 5'- -aCGCCGuUCACCuucucaaucauGUUGaUGGUGUCAAUu -3' miRNA: 3'- caGCGGU-AGUGG-----------CAAC-ACCACAGUUA- -5' |
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| 7119 | 3' | -52.3 | NC_001895.1 | + | 13200 | 1.07 | 0.001323 |
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Target: 5'- cGUCGCCAUCACCGUUGUGGUGUCAAUg -3' miRNA: 3'- -CAGCGGUAGUGGCAACACCACAGUUA- -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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