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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
22009 | 3' | -50.1 | NC_004915.1 | + | 2844 | 1.12 | 0.000125 |
Target: 5'- cCUGCCAAGUAGGUGUUGGACAUGUGCc -3' miRNA: 3'- -GACGGUUCAUCCACAACCUGUACACG- -5' |
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22009 | 3' | -50.1 | NC_004915.1 | + | 1415 | 0.69 | 0.280423 |
Target: 5'- -aGCgAAGUGuguauGGUGgacggcacGGACAUGUGCc -3' miRNA: 3'- gaCGgUUCAU-----CCACaa------CCUGUACACG- -5' |
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22009 | 3' | -50.1 | NC_004915.1 | + | 6712 | 0.66 | 0.387175 |
Target: 5'- gUGCCAcGGUGGGUGcuagcUUGGuuuugcGCAUgacGUGCa -3' miRNA: 3'- gACGGU-UCAUCCAC-----AACC------UGUA---CACG- -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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