miRNA display CGI


Results 1 - 11 of 11 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
23226 3' -60.8 NC_005259.1 + 62845 0.66 0.503695
Target:  5'- aGCGcGCGGuugACGaGCaGCCgCUCG-GCGCg -3'
miRNA:   3'- -CGCaCGCC---UGC-CGaCGG-GAGCaCGUG- -5'
23226 3' -60.8 NC_005259.1 + 60251 0.66 0.503695
Target:  5'- uGCGUGCGGGugcaaGGCUGgCCaCcaGCGCu -3'
miRNA:   3'- -CGCACGCCUg----CCGACgGGaGcaCGUG- -5'
23226 3' -60.8 NC_005259.1 + 2038 0.66 0.484075
Target:  5'- -aGUGCGGugGGCgGUCaC-CG-GCACc -3'
miRNA:   3'- cgCACGCCugCCGaCGG-GaGCaCGUG- -5'
23226 3' -60.8 NC_005259.1 + 8226 0.66 0.455356
Target:  5'- aGCGUGCGGugGuGCcgacacccUGCCUUacCGgucuuggGCGCg -3'
miRNA:   3'- -CGCACGCCugC-CG--------ACGGGA--GCa------CGUG- -5'
23226 3' -60.8 NC_005259.1 + 50505 0.67 0.445988
Target:  5'- uCGaUGUGGGCGGUgcgcUGCaCCUCGacGCGCu -3'
miRNA:   3'- cGC-ACGCCUGCCG----ACG-GGAGCa-CGUG- -5'
23226 3' -60.8 NC_005259.1 + 14644 0.67 0.418549
Target:  5'- uGCGUGaCGauggcGugGGCUcaGCCCgacucgggccgCGUGCACu -3'
miRNA:   3'- -CGCAC-GC-----CugCCGA--CGGGa----------GCACGUG- -5'
23226 3' -60.8 NC_005259.1 + 63861 0.68 0.383608
Target:  5'- gGCGagGUGGcCGGCUGgCCUugCGUGgGCg -3'
miRNA:   3'- -CGCa-CGCCuGCCGACgGGA--GCACgUG- -5'
23226 3' -60.8 NC_005259.1 + 16315 0.69 0.334955
Target:  5'- uGUGaUGUGGGCGGauaCUGCCCga-UGCACg -3'
miRNA:   3'- -CGC-ACGCCUGCC---GACGGGagcACGUG- -5'
23226 3' -60.8 NC_005259.1 + 767 0.7 0.264239
Target:  5'- cGCGUccaccGCGccgaGGCGGCUGCCCUCGguuggGUg- -3'
miRNA:   3'- -CGCA-----CGC----CUGCCGACGGGAGCa----CGug -5'
23226 3' -60.8 NC_005259.1 + 22891 0.73 0.171875
Target:  5'- cGCGcUGCGucuguacGACGGCaagcaggaUGCCCUCGUGCuCg -3'
miRNA:   3'- -CGC-ACGC-------CUGCCG--------ACGGGAGCACGuG- -5'
23226 3' -60.8 NC_005259.1 + 49996 1.11 0.000256
Target:  5'- cGCGUGCGGACGGCUGCCCUCGUGCACg -3'
miRNA:   3'- -CGCACGCCUGCCGACGGGAGCACGUG- -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.