miRNA: 3'- uuGUCCaCaaGCGGa-----CCCU-CCCCACU- -5'
miRNA: 3'- uuGUCCaCaaGCGGa-----CCCU-CCCCACU- -5'
miRNA: 3'- -UUGUCCACAAGCGGACCCUCCCCACU- -5'
miRNA: 3'- -UUGUCCACAAGCGGACCCUCCCCACU- -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 | |||||||
| 8691 | 5' | -58.5 | NC_002229.2 | + | 138342 | 0.69 | 0.619078 |
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Target: 5'- -cCAGG-GggCGCCgcggggGGGAgGGGGUGGg -3' miRNA: 3'- uuGUCCaCaaGCGGa-----CCCU-CCCCACU- -5' |
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| 8691 | 5' | -58.5 | NC_002229.2 | + | 369 | 0.69 | 0.619078 |
|
Target: 5'- -cCAGG-GggCGCCgcggggGGGAgGGGGUGGg -3' miRNA: 3'- uuGUCCaCaaGCGGa-----CCCU-CCCCACU- -5' |
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| 8691 | 5' | -58.5 | NC_002229.2 | + | 170266 | 1.06 | 0.002578 |
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Target: 5'- aAACAGGUGUUCGCCUGGGAGGGGUGAg -3' miRNA: 3'- -UUGUCCACAAGCGGACCCUCCCCACU- -5' |
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| 8691 | 5' | -58.5 | NC_002229.2 | + | 142348 | 1.06 | 0.002578 |
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Target: 5'- aAACAGGUGUUCGCCUGGGAGGGGUGAg -3' miRNA: 3'- -UUGUCCACAAGCGGACCCUCCCCACU- -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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