miRNA: 3'- aCAGCG--AGCUGCaaCAGUu--GCUGGag -5'
miRNA: 3'- acaGCGAGCUG------CAACAGUUGCUGGag -5'
miRNA: 3'- aCaGCGaGCUGCaaCA---------GUUGCUGGAG- -5'
miRNA: 3'- -ACAGCGAGCUGCAACAGUUGCUGGAG- -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 | |||||||
| 8243 | 5' | -52.1 | NC_001982.1 | + | 1495 | 0.67 | 0.08385 |
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Target: 5'- gGUCGCcgUCGACGagGUCGuugUGACCa- -3' miRNA: 3'- aCAGCG--AGCUGCaaCAGUu--GCUGGag -5' |
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| 8243 | 5' | -52.1 | NC_001982.1 | + | 1709 | 0.68 | 0.072195 |
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Target: 5'- --cUGCUCGAUcuucggGUUGUUGGCGACCg- -3' miRNA: 3'- acaGCGAGCUG------CAACAGUUGCUGGag -5' |
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| 8243 | 5' | -52.1 | NC_001982.1 | + | 1542 | 0.71 | 0.035102 |
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Target: 5'- cGcCGC-CGGCGggGUuguuggucaCAACGACCUCg -3' miRNA: 3'- aCaGCGaGCUGCaaCA---------GUUGCUGGAG- -5' |
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| 8243 | 5' | -52.1 | NC_001982.1 | + | 897 | 1.11 | 0.000011 |
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Target: 5'- aUGUCGCUCGACGUUGUCAACGACCUCa -3' miRNA: 3'- -ACAGCGAGCUGCAACAGUUGCUGGAG- -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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