miRNA display CGI


Results 1 - 14 of 14 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
20409 3' -54.5 NC_004688.1 + 67594 0.66 0.891968
Target:  5'- -cGUCGGcGGCGGUCGgCGGgcUGAGGUCc -3'
miRNA:   3'- aaCGGCCuCCGCUAGU-GCU--GUUCUAG- -5'
20409 3' -54.5 NC_004688.1 + 43959 0.66 0.884859
Target:  5'- aUGCUGG-GGCGcAUCggcaugacgGCGGCGGGGUa -3'
miRNA:   3'- aACGGCCuCCGC-UAG---------UGCUGUUCUAg -5'
20409 3' -54.5 NC_004688.1 + 45182 0.66 0.875253
Target:  5'- aUGCCGGccacgaguucgucgAGGUcGUCGCGcauCAGGGUCu -3'
miRNA:   3'- aACGGCC--------------UCCGcUAGUGCu--GUUCUAG- -5'
20409 3' -54.5 NC_004688.1 + 31005 0.66 0.862089
Target:  5'- -cGUCGGcguuGGCGAUCACcACGGGGccuUCg -3'
miRNA:   3'- aaCGGCCu---CCGCUAGUGcUGUUCU---AG- -5'
20409 3' -54.5 NC_004688.1 + 33383 0.66 0.861294
Target:  5'- -cGCCGGAaccuguauccacGGCGAUacucaccCACGGCAcaucgcccgagcGGGUCa -3'
miRNA:   3'- aaCGGCCU------------CCGCUA-------GUGCUGU------------UCUAG- -5'
20409 3' -54.5 NC_004688.1 + 39701 0.67 0.845767
Target:  5'- cUGuuGGGGGUGGgccgUC-CGGCGGGGUUg -3'
miRNA:   3'- aACggCCUCCGCU----AGuGCUGUUCUAG- -5'
20409 3' -54.5 NC_004688.1 + 33985 0.67 0.845767
Target:  5'- -cGUCGGGGGCGucaaAUC-CGGguCAGGGUCa -3'
miRNA:   3'- aaCGGCCUCCGC----UAGuGCU--GUUCUAG- -5'
20409 3' -54.5 NC_004688.1 + 71028 0.71 0.627077
Target:  5'- -cGCuUGGGGGUGAgCGCGcGCAGGAUCu -3'
miRNA:   3'- aaCG-GCCUCCGCUaGUGC-UGUUCUAG- -5'
20409 3' -54.5 NC_004688.1 + 99856 0.71 0.595069
Target:  5'- cUGCUGGuGGCuggCGCGACcGGAUCg -3'
miRNA:   3'- aACGGCCuCCGcuaGUGCUGuUCUAG- -5'
20409 3' -54.5 NC_004688.1 + 93829 0.71 0.595069
Target:  5'- -gGCCGGAaaCGAUCGCG-CAGGAUUg -3'
miRNA:   3'- aaCGGCCUccGCUAGUGCuGUUCUAG- -5'
20409 3' -54.5 NC_004688.1 + 36850 0.72 0.541374
Target:  5'- gUGCCGGuGGUGGUCGCGuucagauACGAGGc- -3'
miRNA:   3'- aACGGCCuCCGCUAGUGC-------UGUUCUag -5'
20409 3' -54.5 NC_004688.1 + 10661 0.76 0.345225
Target:  5'- -cGCUGGGGGCGGUCagcGCGGCGuuguccgcggccuGGAUCg -3'
miRNA:   3'- aaCGGCCUCCGCUAG---UGCUGU-------------UCUAG- -5'
20409 3' -54.5 NC_004688.1 + 19607 0.77 0.307374
Target:  5'- aUGCCGG-GGCGAauaCGCGgACAAGGUCu -3'
miRNA:   3'- aACGGCCuCCGCUa--GUGC-UGUUCUAG- -5'
20409 3' -54.5 NC_004688.1 + 3963 1.06 0.003508
Target:  5'- aUUGCCGGAGGCGAUCACGACAAGAUCc -3'
miRNA:   3'- -AACGGCCUCCGCUAGUGCUGUUCUAG- -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.