miRNA: 3'- -GAUCGGUUAGUUCAGGGUGGUCACCA- -5'
miRNA: 3'- gaUCGG--UUAGUUCA-GG-GUGGUCACCa -5'
miRNA: 3'- gaUCGGUUAGUUCaGGG------------UGGUCa-----CCa -5'
miRNA: 3'- -GAUCGGUU-AGUucAGGGUggUCACCa -5'
miRNA: 3'- gaUCGGUUA----GUUCaGGGUGGUC---ACCA- -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 |
| Predicted miRNA align pattern | |||||||
| 7076 | 5' | -52.9 | NC_001885.1 | + | 2662 | 1.09 | 0.000097 |
|
Target: 5'- aCUAGCCAAUCAAGUCCCACCAGUGGUa -3' miRNA: 3'- -GAUCGGUUAGUUCAGGGUGGUCACCA- -5' |
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| 7076 | 5' | -52.9 | NC_001885.1 | + | 2693 | 0.74 | 0.065487 |
|
Target: 5'- -gAGCUaaGAUCAGGUgCCuCACCAGUGGc -3' miRNA: 3'- gaUCGG--UUAGUUCA-GG-GUGGUCACCa -5' |
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| 7076 | 5' | -52.9 | NC_001885.1 | + | 4557 | 0.66 | 0.245005 |
|
Target: 5'- -gAGCCAAUCGAG-CCCgcucaagaaaagACCAGgccgagGGa -3' miRNA: 3'- gaUCGGUUAGUUCaGGG------------UGGUCa-----CCa -5' |
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| 7076 | 5' | -52.9 | NC_001885.1 | + | 224 | 0.66 | 0.260491 |
|
Target: 5'- gCUGGCCAGcUUAccUCCCGuuGGUGGg -3' miRNA: 3'- -GAUCGGUU-AGUucAGGGUggUCACCa -5' |
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| 7076 | 5' | -52.9 | NC_001885.1 | + | 6880 | 0.71 | 0.109067 |
|
Target: 5'- -aGGCCAGUgcugCAAG-CCCACCAGcuaUGGUu -3' miRNA: 3'- gaUCGGUUA----GUUCaGGGUGGUC---ACCA- -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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