miRNA display CGI


Results 1 - 20 of 106 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
26600 3' -55.9 NC_005357.1 + 143 0.74 0.226314
Target:  5'- cGGCgUGGCGCCaG-GCUuccccgCAGGCGGAUGCg -3'
miRNA:   3'- -CCG-GCUGCGG-CaCGA------GUUCGUCUACG- -5'
26600 3' -55.9 NC_005357.1 + 616 0.66 0.586006
Target:  5'- cGGCCagcaGCGCCGUggacacggcguccgGCgUCGAGUcGGUGCc -3'
miRNA:   3'- -CCGGc---UGCGGCA--------------CG-AGUUCGuCUACG- -5'
26600 3' -55.9 NC_005357.1 + 939 0.67 0.533457
Target:  5'- gGGCCGaucuguccguccuGCGCgGUGCcCAcGGCAGcuUGCa -3'
miRNA:   3'- -CCGGC-------------UGCGgCACGaGU-UCGUCu-ACG- -5'
26600 3' -55.9 NC_005357.1 + 1329 0.72 0.293561
Target:  5'- aGGCCGACaagcgcgaggaaGCCGUGgUCG-GCGGccuUGCg -3'
miRNA:   3'- -CCGGCUG------------CGGCACgAGUuCGUCu--ACG- -5'
26600 3' -55.9 NC_005357.1 + 1533 0.66 0.589331
Target:  5'- aGCCGAUGCCGUuCUU--GUGGAUGa -3'
miRNA:   3'- cCGGCUGCGGCAcGAGuuCGUCUACg -5'
26600 3' -55.9 NC_005357.1 + 1882 0.69 0.441231
Target:  5'- uGGCCGGCGCUG-GC-CGGGUGG--GCg -3'
miRNA:   3'- -CCGGCUGCGGCaCGaGUUCGUCuaCG- -5'
26600 3' -55.9 NC_005357.1 + 2743 0.68 0.492034
Target:  5'- cGGcCCGGCGC--UGCUCGGGC--GUGCc -3'
miRNA:   3'- -CC-GGCUGCGgcACGAGUUCGucUACG- -5'
26600 3' -55.9 NC_005357.1 + 3286 0.67 0.523779
Target:  5'- cGGCCcgugccuuugcGAUGCCGgauucagcaucGCUCAAuucGUAGGUGCu -3'
miRNA:   3'- -CCGG-----------CUGCGGCa----------CGAGUU---CGUCUACG- -5'
26600 3' -55.9 NC_005357.1 + 4156 0.67 0.513105
Target:  5'- aGCCGcccaccuugcGCGCCGUGgUCGAGguGuaGCc -3'
miRNA:   3'- cCGGC----------UGCGGCACgAGUUCguCuaCG- -5'
26600 3' -55.9 NC_005357.1 + 4363 0.67 0.545371
Target:  5'- cGGCCGGa--CGg---CAGGCGGAUGCg -3'
miRNA:   3'- -CCGGCUgcgGCacgaGUUCGUCUACG- -5'
26600 3' -55.9 NC_005357.1 + 4394 0.66 0.600434
Target:  5'- cGCCGucGCGCCGgGcCUUGAGCGuGcgGCa -3'
miRNA:   3'- cCGGC--UGCGGCaC-GAGUUCGU-CuaCG- -5'
26600 3' -55.9 NC_005357.1 + 4512 0.66 0.611566
Target:  5'- cGGgCGGCGCCcgugaacguggcGUGCU-GGGCGGucGUGCc -3'
miRNA:   3'- -CCgGCUGCGG------------CACGAgUUCGUC--UACG- -5'
26600 3' -55.9 NC_005357.1 + 4561 0.66 0.622716
Target:  5'- aGGCCGAaguCGCCGagGCgcu-GCucGGUGCg -3'
miRNA:   3'- -CCGGCU---GCGGCa-CGaguuCGu-CUACG- -5'
26600 3' -55.9 NC_005357.1 + 4828 0.69 0.421755
Target:  5'- gGGCCGGCGCCGUcGUcgaauUCAcggaaAGCGGccaGCu -3'
miRNA:   3'- -CCGGCUGCGGCA-CG-----AGU-----UCGUCua-CG- -5'
26600 3' -55.9 NC_005357.1 + 5121 0.69 0.401873
Target:  5'- cGGCUGGCGCCGUugaacugcaacguGCcgcgCAGGCGGccGUc -3'
miRNA:   3'- -CCGGCUGCGGCA-------------CGa---GUUCGUCuaCG- -5'
26600 3' -55.9 NC_005357.1 + 5310 0.68 0.492034
Target:  5'- aGGUCGAgGCCGUagGCcgCGAGCAcGUGg -3'
miRNA:   3'- -CCGGCUgCGGCA--CGa-GUUCGUcUACg -5'
26600 3' -55.9 NC_005357.1 + 5358 0.66 0.600434
Target:  5'- uGG-CGACaGCCaacaUGCUCGA-CAGGUGCg -3'
miRNA:   3'- -CCgGCUG-CGGc---ACGAGUUcGUCUACG- -5'
26600 3' -55.9 NC_005357.1 + 6736 0.67 0.566144
Target:  5'- cGCUGGgcCGCCGcGCUCAauAGCGGAaaggucuuuaguuUGCc -3'
miRNA:   3'- cCGGCU--GCGGCaCGAGU--UCGUCU-------------ACG- -5'
26600 3' -55.9 NC_005357.1 + 7283 0.66 0.633874
Target:  5'- uGGCCucGGgGCCGUaguGCUC--GCGGAUGg -3'
miRNA:   3'- -CCGG--CUgCGGCA---CGAGuuCGUCUACg -5'
26600 3' -55.9 NC_005357.1 + 7540 0.66 0.600434
Target:  5'- cGCuCGGCGgCGUGCUCGAuCcGcgGCg -3'
miRNA:   3'- cCG-GCUGCgGCACGAGUUcGuCuaCG- -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.