miRNA display CGI


Results 1 - 20 of 38 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
23945 3' -58.3 NC_005262.1 + 19480 1.11 0.000542
Target:  5'- cCGGUGACGCGCCUCAACCCGCACUGGa -3'
miRNA:   3'- -GCCACUGCGCGGAGUUGGGCGUGACC- -5'
23945 3' -58.3 NC_005262.1 + 22693 0.72 0.287472
Target:  5'- ---aGACGCGCCUCGACCgccuCGCauggaucgACUGGa -3'
miRNA:   3'- gccaCUGCGCGGAGUUGG----GCG--------UGACC- -5'
23945 3' -58.3 NC_005262.1 + 58859 0.72 0.287472
Target:  5'- uCGGcGACGUcacGCCggcgCAGCCCGCGCguUGGc -3'
miRNA:   3'- -GCCaCUGCG---CGGa---GUUGGGCGUG--ACC- -5'
23945 3' -58.3 NC_005262.1 + 12883 0.71 0.32383
Target:  5'- aCGGUGACGCucguGCgcaUCAGCCCcgGCcuGCUGGa -3'
miRNA:   3'- -GCCACUGCG----CGg--AGUUGGG--CG--UGACC- -5'
23945 3' -58.3 NC_005262.1 + 30826 0.71 0.331501
Target:  5'- cCGGUG-CGCGUCUCGGCgaCGCGCa-- -3'
miRNA:   3'- -GCCACuGCGCGGAGUUGg-GCGUGacc -5'
23945 3' -58.3 NC_005262.1 + 30390 0.71 0.347239
Target:  5'- gCGGgaacGugGCGCCUgCGACCUugaGCUGGg -3'
miRNA:   3'- -GCCa---CugCGCGGA-GUUGGGcg-UGACC- -5'
23945 3' -58.3 NC_005262.1 + 46399 0.7 0.397589
Target:  5'- ---aGGCGCGCCUCGucgggcuggGCCCGCAa-GGu -3'
miRNA:   3'- gccaCUGCGCGGAGU---------UGGGCGUgaCC- -5'
23945 3' -58.3 NC_005262.1 + 9363 0.69 0.424461
Target:  5'- cCGGUcGGCGCGCgCggCGGCCUGCGCc-- -3'
miRNA:   3'- -GCCA-CUGCGCG-Ga-GUUGGGCGUGacc -5'
23945 3' -58.3 NC_005262.1 + 11951 0.69 0.428125
Target:  5'- gCGGcGcCGCGCUUCAGCacuucgcgacgucggCCGCGCUGa -3'
miRNA:   3'- -GCCaCuGCGCGGAGUUG---------------GGCGUGACc -5'
23945 3' -58.3 NC_005262.1 + 53094 0.69 0.433657
Target:  5'- cCGcGUGcGCGCgGCCUCGAUCUGCGCa-- -3'
miRNA:   3'- -GC-CAC-UGCG-CGGAGUUGGGCGUGacc -5'
23945 3' -58.3 NC_005262.1 + 3695 0.69 0.433657
Target:  5'- aCGGUGAUgccgGCGCCgaCAAUCUGacugaGCUGGg -3'
miRNA:   3'- -GCCACUG----CGCGGa-GUUGGGCg----UGACC- -5'
23945 3' -58.3 NC_005262.1 + 54846 0.69 0.433657
Target:  5'- gGGUGGaGUGCgUC-GCCCGCGCgagGGu -3'
miRNA:   3'- gCCACUgCGCGgAGuUGGGCGUGa--CC- -5'
23945 3' -58.3 NC_005262.1 + 2825 0.69 0.460962
Target:  5'- -----cUGCGCCUCGACCucguuugCGCGCUGGc -3'
miRNA:   3'- gccacuGCGCGGAGUUGG-------GCGUGACC- -5'
23945 3' -58.3 NC_005262.1 + 34797 0.68 0.471555
Target:  5'- aGGUGugGCuucGCCUCAAgCCGUcCgaGGa -3'
miRNA:   3'- gCCACugCG---CGGAGUUgGGCGuGa-CC- -5'
23945 3' -58.3 NC_005262.1 + 54940 0.68 0.521154
Target:  5'- gGcGUGucgcUGCGCUUCAACCUGCGCg-- -3'
miRNA:   3'- gC-CACu---GCGCGGAGUUGGGCGUGacc -5'
23945 3' -58.3 NC_005262.1 + 61134 0.68 0.521154
Target:  5'- gCGGccagGACGcCGCC-CGGCgCCGCGCaGGc -3'
miRNA:   3'- -GCCa---CUGC-GCGGaGUUG-GGCGUGaCC- -5'
23945 3' -58.3 NC_005262.1 + 28764 0.68 0.522168
Target:  5'- uGGUGACuccuuagaagaaauuCGCCUUgguacggacgGGCCCGCGCUGc -3'
miRNA:   3'- gCCACUGc--------------GCGGAG----------UUGGGCGUGACc -5'
23945 3' -58.3 NC_005262.1 + 7244 0.67 0.531325
Target:  5'- gCGGaUGAUGCGCCc---CUCGCGCUGc -3'
miRNA:   3'- -GCC-ACUGCGCGGaguuGGGCGUGACc -5'
23945 3' -58.3 NC_005262.1 + 50584 0.67 0.541567
Target:  5'- uGGcgGACGCGCCgguuGCgCGCAC-GGa -3'
miRNA:   3'- gCCa-CUGCGCGGagu-UGgGCGUGaCC- -5'
23945 3' -58.3 NC_005262.1 + 17255 0.67 0.541567
Target:  5'- aGGaGACGCGCCuguUCGAgCUGCGCg-- -3'
miRNA:   3'- gCCaCUGCGCGG---AGUUgGGCGUGacc -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.