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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
177 | 3' | -52.9 | AC_000007.1 | + | 16345 | 0.66 | 0.683207 |
Target: 5'- cGCGGCCAUUAgu-GCUaugacucaGgGUCGCa- -3' miRNA: 3'- -CGCCGGUAGUaauCGAa-------CgCAGCGag -5' |
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177 | 3' | -52.9 | AC_000007.1 | + | 23880 | 0.7 | 0.471555 |
Target: 5'- cGCGGCCAUCGaccucgacggcggauUUGGCcaUUGCGUC-Ca- -3' miRNA: 3'- -CGCCGGUAGU---------------AAUCG--AACGCAGcGag -5' |
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177 | 3' | -52.9 | AC_000007.1 | + | 25125 | 1.11 | 0.000652 |
Target: 5'- uGCGGCCAUCAUUAGCUUGCGUCGCUCc -3' miRNA: 3'- -CGCCGGUAGUAAUCGAACGCAGCGAG- -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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