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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
5079 | 5' | -50.6 | NC_001786.1 | + | 5050 | 0.69 | 0.340825 |
Target: 5'- gUGGAgGGGUAC-CGUCUGaUGcAugGCCg -3' miRNA: 3'- -AUUUgCCCAUGuGCGGAC-AC-UugUGG- -5' |
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5079 | 5' | -50.6 | NC_001786.1 | + | 3044 | 0.75 | 0.127755 |
Target: 5'- ----aGGGUauGCAcCGCCcGUGAACACCu -3' miRNA: 3'- auuugCCCA--UGU-GCGGaCACUUGUGG- -5' |
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5079 | 5' | -50.6 | NC_001786.1 | + | 9990 | 1.12 | 0.000202 |
Target: 5'- aUAAACGGGUACACGCCUGUGAACACCg -3' miRNA: 3'- -AUUUGCCCAUGUGCGGACACUUGUGG- -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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