miRNA display CGI


Results 1 - 20 of 21 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
27049 3' -54.7 NC_005832.1 + 10447 0.66 0.905724
Target:  5'- aGGGugGUGGCCgagggcuugacgUUUAAGGaaGUGAGg -3'
miRNA:   3'- cCUCugCGCCGG------------AAAUUCCacCGCUC- -5'
27049 3' -54.7 NC_005832.1 + 19642 0.66 0.905724
Target:  5'- gGGAGACgaGCGGC-----GGGUGG-GAGa -3'
miRNA:   3'- -CCUCUG--CGCCGgaaauUCCACCgCUC- -5'
27049 3' -54.7 NC_005832.1 + 32201 0.66 0.899228
Target:  5'- --cGGCGUGGCCU--GGGGUG-UGGGg -3'
miRNA:   3'- ccuCUGCGCCGGAaaUUCCACcGCUC- -5'
27049 3' -54.7 NC_005832.1 + 55829 0.66 0.899228
Target:  5'- cGGAGcCGgucagGGCCgccguGGUGGUGGGg -3'
miRNA:   3'- -CCUCuGCg----CCGGaaauuCCACCGCUC- -5'
27049 3' -54.7 NC_005832.1 + 67487 0.66 0.892487
Target:  5'- aGGuGugGUGGgCUccggcggcGGUGGCGGGu -3'
miRNA:   3'- -CCuCugCGCCgGAaauu----CCACCGCUC- -5'
27049 3' -54.7 NC_005832.1 + 21251 0.67 0.870833
Target:  5'- aGGGGACa-GGCCUUUAGGagaaaGUGGgGAc -3'
miRNA:   3'- -CCUCUGcgCCGGAAAUUC-----CACCgCUc -5'
27049 3' -54.7 NC_005832.1 + 62097 0.67 0.870833
Target:  5'- gGGAGACGUGGUggUguuuGUaGGCGAGa -3'
miRNA:   3'- -CCUCUGCGCCGgaAauucCA-CCGCUC- -5'
27049 3' -54.7 NC_005832.1 + 31154 0.67 0.863155
Target:  5'- cGAcGugGCGGCUggaaggAGGGUGGUGc- -3'
miRNA:   3'- cCU-CugCGCCGGaaa---UUCCACCGCuc -5'
27049 3' -54.7 NC_005832.1 + 63917 0.67 0.863155
Target:  5'- cGGAGAUgGCGGUCgcagagAGGGcGGCaGAGu -3'
miRNA:   3'- -CCUCUG-CGCCGGaaa---UUCCaCCG-CUC- -5'
27049 3' -54.7 NC_005832.1 + 48007 0.67 0.855256
Target:  5'- cGGAGACGaGGUgUUUA---UGGCGGGg -3'
miRNA:   3'- -CCUCUGCgCCGgAAAUuccACCGCUC- -5'
27049 3' -54.7 NC_005832.1 + 10424 0.68 0.803642
Target:  5'- uGGGACGCGGU----GAGGagGGCGAa -3'
miRNA:   3'- cCUCUGCGCCGgaaaUUCCa-CCGCUc -5'
27049 3' -54.7 NC_005832.1 + 72066 0.69 0.765836
Target:  5'- -uAGugGCGGCCgucguGGUGG-GAGu -3'
miRNA:   3'- ccUCugCGCCGGaaauuCCACCgCUC- -5'
27049 3' -54.7 NC_005832.1 + 53924 0.7 0.726019
Target:  5'- aGGGGACGUaGGCCUUUcccccGGGc-GCGAGg -3'
miRNA:   3'- -CCUCUGCG-CCGGAAAu----UCCacCGCUC- -5'
27049 3' -54.7 NC_005832.1 + 6327 0.7 0.726019
Target:  5'- aGGGGACGCGGCggggAAGcUGGUGGa -3'
miRNA:   3'- -CCUCUGCGCCGgaaaUUCcACCGCUc -5'
27049 3' -54.7 NC_005832.1 + 6101 0.7 0.715825
Target:  5'- aGGAGcuCGCGGCCUgccucaugGAGGUucgcggcuGCGAGg -3'
miRNA:   3'- -CCUCu-GCGCCGGAaa------UUCCAc-------CGCUC- -5'
27049 3' -54.7 NC_005832.1 + 94025 0.71 0.632374
Target:  5'- uGGGGAUgGCGGUCgc---GGUGGCGAu -3'
miRNA:   3'- -CCUCUG-CGCCGGaaauuCCACCGCUc -5'
27049 3' -54.7 NC_005832.1 + 87578 0.72 0.569493
Target:  5'- gGGAGACGuCGGCCUUUGccgccGGGUccauGGCcAGc -3'
miRNA:   3'- -CCUCUGC-GCCGGAAAU-----UCCA----CCGcUC- -5'
27049 3' -54.7 NC_005832.1 + 96771 0.72 0.569493
Target:  5'- gGGAGAUGCuGGCC---AAGGUGGaCGGc -3'
miRNA:   3'- -CCUCUGCG-CCGGaaaUUCCACC-GCUc -5'
27049 3' -54.7 NC_005832.1 + 78867 0.74 0.478689
Target:  5'- cGGAGGacuuUGCGGCC---AGGGUGGCaGAGu -3'
miRNA:   3'- -CCUCU----GCGCCGGaaaUUCCACCG-CUC- -5'
27049 3' -54.7 NC_005832.1 + 51997 0.74 0.45945
Target:  5'- aGGAGucccacggcgcACGCGGCCUUcaUAAGGgacGCGGGg -3'
miRNA:   3'- -CCUC-----------UGCGCCGGAA--AUUCCac-CGCUC- -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.