miRNA display CGI


Results 1 - 20 of 56 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
13943 5' -54.5 NC_003521.1 + 101396 0.67 0.965198
Target:  5'- -cGCuuGACggCCAcgcAGGAGAGCCCg -3'
miRNA:   3'- cuUGggCUGa-GGUcacUCCUCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 149670 0.68 0.945007
Target:  5'- -uGCCCGACaucgugggccccgCCGGgaagcUGAGGuGGAGCCCu -3'
miRNA:   3'- cuUGGGCUGa------------GGUC-----ACUCC-UCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 219836 0.68 0.94672
Target:  5'- aGACCCGGaUCCAGUGcGG---GCCCg -3'
miRNA:   3'- cUUGGGCUgAGGUCACuCCucuUGGG- -5'
13943 5' -54.5 NC_003521.1 + 26954 0.68 0.950847
Target:  5'- -cGCCCGGCggguacgUCAGUGguAGGAGuucCCCg -3'
miRNA:   3'- cuUGGGCUGa------GGUCAC--UCCUCuu-GGG- -5'
13943 5' -54.5 NC_003521.1 + 27365 0.68 0.954754
Target:  5'- gGAGCaCCaGGCUCCAGcc-GGGGGGCCa -3'
miRNA:   3'- -CUUG-GG-CUGAGGUCacuCCUCUUGGg -5'
13943 5' -54.5 NC_003521.1 + 19337 0.68 0.954754
Target:  5'- --uCCCGgggaGCUCCGGcGAGGA--GCCCu -3'
miRNA:   3'- cuuGGGC----UGAGGUCaCUCCUcuUGGG- -5'
13943 5' -54.5 NC_003521.1 + 143160 0.68 0.958446
Target:  5'- --cCUCGACgaUCCcGUGGGGGucGGACCCg -3'
miRNA:   3'- cuuGGGCUG--AGGuCACUCCU--CUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 78378 0.68 0.958446
Target:  5'- cAGCUCGuACUCC---GAGGGGAACUCg -3'
miRNA:   3'- cUUGGGC-UGAGGucaCUCCUCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 91941 0.68 0.958803
Target:  5'- uGGACCCGGCggcggaccccguggCGGcGAGGgcGGAACCCg -3'
miRNA:   3'- -CUUGGGCUGag------------GUCaCUCC--UCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 52851 0.68 0.937798
Target:  5'- cGAACCCGugUCUuuuaaccaGGUGGGGuggugGGGACUUu -3'
miRNA:   3'- -CUUGGGCugAGG--------UCACUCC-----UCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 211763 0.69 0.932999
Target:  5'- uAGCCCGAgaugUCCGGccaggGAGGAaAGCCCg -3'
miRNA:   3'- cUUGGGCUg---AGGUCa----CUCCUcUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 150420 0.69 0.927973
Target:  5'- cGGACCCGuCUgUCGcGUGcAGGAGAgcgcGCCCg -3'
miRNA:   3'- -CUUGGGCuGA-GGU-CAC-UCCUCU----UGGG- -5'
13943 5' -54.5 NC_003521.1 + 64253 0.76 0.579026
Target:  5'- aGGACCUGAuCUUCAGUcuGGAGAACCUg -3'
miRNA:   3'- -CUUGGGCU-GAGGUCAcuCCUCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 103117 0.74 0.727354
Target:  5'- aGGACgCGGggugaggCUGGUGGGGAGAGCCCa -3'
miRNA:   3'- -CUUGgGCUga-----GGUCACUCCUCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 32919 0.72 0.826465
Target:  5'- --cCCCGGCguaGGUGGcgccGGAGAGCCCa -3'
miRNA:   3'- cuuGGGCUGaggUCACU----CCUCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 235619 0.72 0.826465
Target:  5'- gGAGCCCGACcgcgugguguUUCAGUuggGAGGGGugcACCCu -3'
miRNA:   3'- -CUUGGGCUG----------AGGUCA---CUCCUCu--UGGG- -5'
13943 5' -54.5 NC_003521.1 + 88685 0.7 0.886481
Target:  5'- cGGCCCGGCUCgGGgacaaAGGucucGAGCCCg -3'
miRNA:   3'- cUUGGGCUGAGgUCac---UCCu---CUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 64673 0.7 0.899448
Target:  5'- -cACCgGGCUCCgAGgaGAuGGAGAACCUg -3'
miRNA:   3'- cuUGGgCUGAGG-UCa-CU-CCUCUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 737 0.7 0.908001
Target:  5'- uGAACCCucGAUuucaacaacacacauUcCCAGUGAGGGcGGACCCc -3'
miRNA:   3'- -CUUGGG--CUG---------------A-GGUCACUCCU-CUUGGG- -5'
13943 5' -54.5 NC_003521.1 + 196533 0.69 0.911533
Target:  5'- cAACCCGcccaGCUCCcg-GGGGAGAaagccgACCCa -3'
miRNA:   3'- cUUGGGC----UGAGGucaCUCCUCU------UGGG- -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.