miRNA: 3'- -CGGaaaGCG------UGACCGUa------GGUGCGGCg -5'
miRNA: 3'- -CGGaaag--CGUGaCC-GUAgGUGCGGCG- -5'
miRNA: 3'- -CGGaaa--GCGUGaCCGUAGGUGCGgCG- -5'
miRNA: 3'- -CGGaaa--GCGUgACCGUaGGUGCGGCG- -5'
Results 21 - 24 of 24 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 | |||||||
| 22400 | 3' | -55.7 | NC_005056.1 | + | 11882 | 0.69 | 0.384694 |
|
Target: 5'- uGCCgg-UGCaguaaaGCUGGCAgcggcaaCCGCGCCGg -3' miRNA: 3'- -CGGaaaGCG------UGACCGUa------GGUGCGGCg -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 21844 | 0.69 | 0.366475 |
|
Target: 5'- uGCCacgaaaGCGCaGGcCAUgCGCGCCGCu -3' miRNA: 3'- -CGGaaag--CGUGaCC-GUAgGUGCGGCG- -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 27641 | 0.7 | 0.307508 |
|
Target: 5'- gGCUguuacCGCAUgGGCGUCUACGUgGCg -3' miRNA: 3'- -CGGaaa--GCGUGaCCGUAGGUGCGgCG- -5' |
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| 22400 | 3' | -55.7 | NC_005056.1 | + | 6324 | 0.71 | 0.277203 |
|
Target: 5'- cGCCgugugUGCGaUGGCGaCCGCGUCGCu -3' miRNA: 3'- -CGGaaa--GCGUgACCGUaGGUGCGGCG- -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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