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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
653 | 3' | -54.4 | AC_000017.1 | + | 12397 | 0.67 | 0.546701 |
Target: 5'- ---gCUCUGCAGCgCCgcCcGCACCGc -3' miRNA: 3'- aguaGAGAUGUCGgGGauGaCGUGGC- -5' |
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653 | 3' | -54.4 | AC_000017.1 | + | 18022 | 0.68 | 0.491729 |
Target: 5'- gCGUCUCU--GGCCCCgcgacacgGCUcGCGCCc -3' miRNA: 3'- aGUAGAGAugUCGGGGa-------UGA-CGUGGc -5' |
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653 | 3' | -54.4 | AC_000017.1 | + | 22281 | 0.73 | 0.239211 |
Target: 5'- aCAgCUCUACAGCuUCCUGgaGCGCCa -3' miRNA: 3'- aGUaGAGAUGUCG-GGGAUgaCGUGGc -5' |
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653 | 3' | -54.4 | AC_000017.1 | + | 26731 | 1.1 | 0.000511 |
Target: 5'- gUCAUCUCUACAGCCCCUACUGCACCGg -3' miRNA: 3'- -AGUAGAGAUGUCGGGGAUGACGUGGC- -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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