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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
13053 | 5' | -52.8 | NC_003390.1 | + | 21832 | 0.66 | 0.767734 |
Target: 5'- uCGAGGGAca-GGUGGagGGCCAgGACGGa -3' miRNA: 3'- -GCUCCCUacgUCAUCg-UCGGU-UUGUC- -5' |
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13053 | 5' | -52.8 | NC_003390.1 | + | 23983 | 0.69 | 0.599664 |
Target: 5'- -aAGGGAUGUAGUuGUGGCCAuACu- -3' miRNA: 3'- gcUCCCUACGUCAuCGUCGGUuUGuc -5' |
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13053 | 5' | -52.8 | NC_003390.1 | + | 3516 | 1.11 | 0.000975 |
Target: 5'- aCGAGGGAUGCAGUAGCAGCCAAACAGg -3' miRNA: 3'- -GCUCCCUACGUCAUCGUCGGUUUGUC- -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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