miRNA display CGI


Results 1 - 6 of 6 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
26688 5' -52.9 NC_005808.1 + 25322 0.71 0.448883
Target:  5'- aCCGGCGcUCGuCGCCGGGAuuguccaggccggccAGUUCGc -3'
miRNA:   3'- aGGUCGU-AGCuGCGGCUCU---------------UCAAGUa -5'
26688 5' -52.9 NC_005808.1 + 32855 0.67 0.701051
Target:  5'- cCUGGCcgcagacgGUCGGCGCCGAGAuugUCGc -3'
miRNA:   3'- aGGUCG--------UAGCUGCGGCUCUucaAGUa -5'
26688 5' -52.9 NC_005808.1 + 23341 1.07 0.00155
Target:  5'- uUCCAGCAUCGACGCCGAGAAGUUCAUg -3'
miRNA:   3'- -AGGUCGUAGCUGCGGCUCUUCAAGUA- -5'
26688 5' -52.9 NC_005808.1 + 32744 0.68 0.63249
Target:  5'- gCCGGUgccacgcucAUCGACGCCGAaaccGAGGUgcagCGUg -3'
miRNA:   3'- aGGUCG---------UAGCUGCGGCU----CUUCAa---GUA- -5'
26688 5' -52.9 NC_005808.1 + 37033 0.66 0.73451
Target:  5'- gCCAGCGUUGGCGCCGucGAuac-CGUg -3'
miRNA:   3'- aGGUCGUAGCUGCGGCu-CUucaaGUA- -5'
26688 5' -52.9 NC_005808.1 + 13729 0.66 0.771192
Target:  5'- gCCAGCAgcgaggacguggcgCGGCGCUGGGAcAGcUUCGg -3'
miRNA:   3'- aGGUCGUa-------------GCUGCGGCUCU-UC-AAGUa -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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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.