miRNA display CGI


Results 1 - 20 of 87 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
25504 5' -57.9 NC_005337.1 + 132719 0.94 0.016229
Target:  5'- gCGCCAUGCGCGCGGU-AUCAAGCGGUc -3'
miRNA:   3'- -GCGGUACGCGCGCCAcUAGUUCGCCA- -5'
25504 5' -57.9 NC_005337.1 + 40539 0.78 0.204729
Target:  5'- cCGCCGcgGCGCGCGGUGGU---GCGGUu -3'
miRNA:   3'- -GCGGUa-CGCGCGCCACUAguuCGCCA- -5'
25504 5' -57.9 NC_005337.1 + 130176 0.76 0.280147
Target:  5'- gGCCGUGCGCGCGGag--CAcGCGGa -3'
miRNA:   3'- gCGGUACGCGCGCCacuaGUuCGCCa -5'
25504 5' -57.9 NC_005337.1 + 42620 0.75 0.29354
Target:  5'- cCGCCAUGUGCggcaccGCGGUGGUCGA-CGGc -3'
miRNA:   3'- -GCGGUACGCG------CGCCACUAGUUcGCCa -5'
25504 5' -57.9 NC_005337.1 + 90698 0.75 0.312404
Target:  5'- gGCCAUcagcaccuccuucaGCGCGCGGUcggGGUCGcAGCGGUc -3'
miRNA:   3'- gCGGUA--------------CGCGCGCCA---CUAGU-UCGCCA- -5'
25504 5' -57.9 NC_005337.1 + 23087 0.74 0.335934
Target:  5'- uGCCcggcaucGUGCGCGCGGUGGUCA-GCa-- -3'
miRNA:   3'- gCGG-------UACGCGCGCCACUAGUuCGcca -5'
25504 5' -57.9 NC_005337.1 + 12178 0.74 0.344316
Target:  5'- gCGCCGUGCGCGaCGaGcUGGUCGAGCa-- -3'
miRNA:   3'- -GCGGUACGCGC-GC-C-ACUAGUUCGcca -5'
25504 5' -57.9 NC_005337.1 + 74216 0.74 0.352065
Target:  5'- cCGCCGUGCuuGCgGCGGaUGAUCGggagGGCGGg -3'
miRNA:   3'- -GCGGUACG--CG-CGCC-ACUAGU----UCGCCa -5'
25504 5' -57.9 NC_005337.1 + 40014 0.73 0.392637
Target:  5'- gGCCAUcCGCGCGGUGGagaugCuAGCGGg -3'
miRNA:   3'- gCGGUAcGCGCGCCACUa----GuUCGCCa -5'
25504 5' -57.9 NC_005337.1 + 97059 0.72 0.436128
Target:  5'- uCGCCAcgcacgcgcgGCGCGCGGUGGUCu-GCGu- -3'
miRNA:   3'- -GCGGUa---------CGCGCGCCACUAGuuCGCca -5'
25504 5' -57.9 NC_005337.1 + 33269 0.72 0.454286
Target:  5'- aGCUcuucccGCGCGUGGaGAUCGAGUGGUg -3'
miRNA:   3'- gCGGua----CGCGCGCCaCUAGUUCGCCA- -5'
25504 5' -57.9 NC_005337.1 + 34003 0.72 0.472846
Target:  5'- cCGCCucuugcGCGCGCGGUaggugcucccGGUCAuGGCGGg -3'
miRNA:   3'- -GCGGua----CGCGCGCCA----------CUAGU-UCGCCa -5'
25504 5' -57.9 NC_005337.1 + 109496 0.72 0.472846
Target:  5'- aGCCAcGCGUacGUGGUGAUCAGGaaGGUg -3'
miRNA:   3'- gCGGUaCGCG--CGCCACUAGUUCg-CCA- -5'
25504 5' -57.9 NC_005337.1 + 50405 0.71 0.501378
Target:  5'- gCGCC--GCGCGuCGGUGAcgGAGCGGc -3'
miRNA:   3'- -GCGGuaCGCGC-GCCACUagUUCGCCa -5'
25504 5' -57.9 NC_005337.1 + 25060 0.71 0.511057
Target:  5'- gCGCCGUGCGgGCGGcGuucGUCAAGCu-- -3'
miRNA:   3'- -GCGGUACGCgCGCCaC---UAGUUCGcca -5'
25504 5' -57.9 NC_005337.1 + 66627 0.71 0.511057
Target:  5'- aCGCCuuucggGCGgGCGGUGG--GAGUGGUg -3'
miRNA:   3'- -GCGGua----CGCgCGCCACUagUUCGCCA- -5'
25504 5' -57.9 NC_005337.1 + 29724 0.71 0.520813
Target:  5'- gCGCaCGcGCGCGCGGUGuugcGGCGGa -3'
miRNA:   3'- -GCG-GUaCGCGCGCCACuaguUCGCCa -5'
25504 5' -57.9 NC_005337.1 + 14112 0.7 0.550492
Target:  5'- uGaCUAUGCGgGCGGUGGcCAcGCGGa -3'
miRNA:   3'- gC-GGUACGCgCGCCACUaGUuCGCCa -5'
25504 5' -57.9 NC_005337.1 + 100221 0.7 0.570564
Target:  5'- gGCCGgcgccGCGUGCGcGUGAUC--GCGGUc -3'
miRNA:   3'- gCGGUa----CGCGCGC-CACUAGuuCGCCA- -5'
25504 5' -57.9 NC_005337.1 + 110368 0.7 0.580669
Target:  5'- gCGCgCggGCGCGCGGcagcGA-CAGGCGGa -3'
miRNA:   3'- -GCG-GuaCGCGCGCCa---CUaGUUCGCCa -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.