miRNA: 3'- -GGAUa--GCU----UAGgUC-CGGGGACUA---ACC- -5'
miRNA: 3'- -GGAUAGCU----UAGGUCCGGGGACUAACC- -5'
miRNA: 3'- -GGAUAGCUUAGGUCCGGGGACUAACC- -5'
Results 1 - 3 of 3 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 | |||||||
| 10232 | 3' | -51.5 | NC_002665.1 | + | 17902 | 0.66 | 0.971615 |
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Target: 5'- gCCUGgccCGAuaauGUCaGGuGCCCCUGAUcugUGGa -3' miRNA: 3'- -GGAUa--GCU----UAGgUC-CGGGGACUA---ACC- -5' |
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| 10232 | 3' | -51.5 | NC_002665.1 | + | 97639 | 0.94 | 0.054695 |
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Target: 5'- gUCUAUUGGgcaaAUCCAGGCCCCUGAUUGGc -3' miRNA: 3'- -GGAUAGCU----UAGGUCCGGGGACUAACC- -5' |
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| 10232 | 3' | -51.5 | NC_002665.1 | + | 97460 | 1.13 | 0.003568 |
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Target: 5'- gCCUAUCGAAUCCAGGCCCCUGAUUGGu -3' miRNA: 3'- -GGAUAGCUUAGGUCCGGGGACUAACC- -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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