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miRNA: 3'- -CGAGUagUUGCGGUGCGGa---------CCGUGca -5'
miRNA: 3'- -CGAGU----AGUugCGGu--GCGGACCGUGCa -5'
miRNA: 3'- -CGA-GUAGUUGCGGUG-CGGACCgUGCa -5'
miRNA: 3'- -CGAGUAGUUGCGGUGCGGACCGUGCA- -5'
Results 41 - 44 of 44 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 18439 | 5' | -56.1 | NC_004681.1 | + | 8401 | 0.74 | 0.306913 |
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Target: 5'- aGCUCAagAACGCCACGUCguucgagaagGGCACc- -3' miRNA: 3'- -CGAGUagUUGCGGUGCGGa---------CCGUGca -5' |
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| 18439 | 5' | -56.1 | NC_004681.1 | + | 17462 | 0.75 | 0.251867 |
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Target: 5'- gGCUCAccgaUCAugGCUucgUGCCUGGCAUGg -3' miRNA: 3'- -CGAGU----AGUugCGGu--GCGGACCGUGCa -5' |
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| 18439 | 5' | -56.1 | NC_004681.1 | + | 53092 | 0.78 | 0.184818 |
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Target: 5'- cGCUaCAUCGACGUCACuGCCUGGgAUGa -3' miRNA: 3'- -CGA-GUAGUUGCGGUG-CGGACCgUGCa -5' |
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| 18439 | 5' | -56.1 | NC_004681.1 | + | 32833 | 1.08 | 0.001302 |
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Target: 5'- gGCUCAUCAACGCCACGCCUGGCACGUu -3' miRNA: 3'- -CGAGUAGUUGCGGUGCGGACCGUGCA- -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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