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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
22941 | 3' | -55.7 | NC_005137.2 | + | 38981 | 0.66 | 0.877122 |
Target: 5'- aGCUUgCGUuuUGCGCCGuuuuGCcgGCGGAGCUu -3' miRNA: 3'- -UGAA-GCA--ACGCGGC----CGa-CGUUUCGGc -5' |
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22941 | 3' | -55.7 | NC_005137.2 | + | 26522 | 0.7 | 0.664264 |
Target: 5'- ---aCGcgGCGCUGGCUGCGuuuugcguGCCGg -3' miRNA: 3'- ugaaGCaaCGCGGCCGACGUuu------CGGC- -5' |
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22941 | 3' | -55.7 | NC_005137.2 | + | 57414 | 1.08 | 0.002656 |
Target: 5'- gACUUCGUUGCGCCGGCUGCAAAGCCGu -3' miRNA: 3'- -UGAAGCAACGCGGCCGACGUUUCGGC- -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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