miRNA: 3'- -GGUGGCGGCGGACaUGUucacuaguu -5'
miRNA: 3'- gGUGGCg--GCGGACAuGUU-CACUAGUU- -5'
miRNA: 3'- gGUGGCGGCGGACAUGUucacuaguu -5'
miRNA: 3'- -GGUGGCGGCGG-ACA--------------UGUUC-ACUaguu -5'
miRNA: 3'- -GGUGGCGGCGGACAUGUUCACUAGUU- -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 | |||||||
| 11641 | 3' | -53.6 | NC_003094.2 | + | 81726 | 0.68 | 0.876473 |
|
Target: 5'- gCCGCCGCCGCCUGaGCGu-------- -3' miRNA: 3'- -GGUGGCGGCGGACaUGUucacuaguu -5' |
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| 11641 | 3' | -53.6 | NC_003094.2 | + | 27287 | 0.66 | 0.943273 |
|
Target: 5'- aCAUCGaaaCGCUUGU-CAAuGUGAUCAAu -3' miRNA: 3'- gGUGGCg--GCGGACAuGUU-CACUAGUU- -5' |
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| 11641 | 3' | -53.6 | NC_003094.2 | + | 20322 | 0.69 | 0.853162 |
|
Target: 5'- aCAUCGCCGCCUGUACGc-------- -3' miRNA: 3'- gGUGGCGGCGGACAUGUucacuaguu -5' |
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| 11641 | 3' | -53.6 | NC_003094.2 | + | 16765 | 0.69 | 0.850722 |
|
Target: 5'- aCCGCCGCCGCCcUGUccaaauuguagcauGCGGGuUGAg--- -3' miRNA: 3'- -GGUGGCGGCGG-ACA--------------UGUUC-ACUaguu -5' |
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| 11641 | 3' | -53.6 | NC_003094.2 | + | 58617 | 1.08 | 0.004432 |
|
Target: 5'- gCCACCGCCGCCUGUACAAGUGAUCAAu -3' miRNA: 3'- -GGUGGCGGCGGACAUGUUCACUAGUU- -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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