miRNA display CGI


Results 1 - 20 of 40 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
13956 3' -55.6 NC_003521.1 + 652 0.71 0.784941
Target:  5'- aCGGgccCCGGGGGGAcGCGgAGGAgggGGg -3'
miRNA:   3'- -GCCau-GGUUCCCCUaCGCgUCCUa--CU- -5'
13956 3' -55.6 NC_003521.1 + 17168 0.66 0.968151
Target:  5'- aCGGUgauuggaggcgcgGCCGAGGGGGUcgaggcgGCcGCGGGGa-- -3'
miRNA:   3'- -GCCA-------------UGGUUCCCCUA-------CG-CGUCCUacu -5'
13956 3' -55.6 NC_003521.1 + 25864 1.1 0.004517
Target:  5'- aCGGUACCAAGGGGAUGCGCAGGAUGAa -3'
miRNA:   3'- -GCCAUGGUUCCCCUACGCGUCCUACU- -5'
13956 3' -55.6 NC_003521.1 + 26528 0.66 0.959028
Target:  5'- cCGGUGCCu--GGGGUGCaGCAGcGcUGGc -3'
miRNA:   3'- -GCCAUGGuucCCCUACG-CGUC-CuACU- -5'
13956 3' -55.6 NC_003521.1 + 31176 0.71 0.793832
Target:  5'- aCGGUAgUc-GGGGAUGCGguGGAUc- -3'
miRNA:   3'- -GCCAUgGuuCCCCUACGCguCCUAcu -5'
13956 3' -55.6 NC_003521.1 + 35196 0.66 0.971581
Target:  5'- uCGGacCCAgggacAGGGGgcGCGCGGGucgGAu -3'
miRNA:   3'- -GCCauGGU-----UCCCCuaCGCGUCCua-CU- -5'
13956 3' -55.6 NC_003521.1 + 42570 0.66 0.962471
Target:  5'- gCGGgGCCAaaaacaGGGGGAUGCGUaccgucugcgAGGGc-- -3'
miRNA:   3'- -GCCaUGGU------UCCCCUACGCG----------UCCUacu -5'
13956 3' -55.6 NC_003521.1 + 55351 0.67 0.928833
Target:  5'- aGGUgaucGCCGAGcGGGUGCGCcGGAg-- -3'
miRNA:   3'- gCCA----UGGUUCcCCUACGCGuCCUacu -5'
13956 3' -55.6 NC_003521.1 + 60697 0.72 0.757516
Target:  5'- gCGGgggACCcGGGGGcgGCGCGGGu--- -3'
miRNA:   3'- -GCCa--UGGuUCCCCuaCGCGUCCuacu -5'
13956 3' -55.6 NC_003521.1 + 63133 0.74 0.620702
Target:  5'- uCGGUACCGGGaGGGAUGUcugagGCGGGGc-- -3'
miRNA:   3'- -GCCAUGGUUC-CCCUACG-----CGUCCUacu -5'
13956 3' -55.6 NC_003521.1 + 74627 0.67 0.933818
Target:  5'- ---cGCCAacagcGGGGuGGUGCGCGGGAcccUGGa -3'
miRNA:   3'- gccaUGGU-----UCCC-CUACGCGUCCU---ACU- -5'
13956 3' -55.6 NC_003521.1 + 77122 0.67 0.928833
Target:  5'- gCGGUcgccuCCGAGGacgaGGAcGCGCGGGAaGAg -3'
miRNA:   3'- -GCCAu----GGUUCC----CCUaCGCGUCCUaCU- -5'
13956 3' -55.6 NC_003521.1 + 89987 0.73 0.680382
Target:  5'- uCGGgucggGCCGcuGGGGGAUG-GCGGGggGAa -3'
miRNA:   3'- -GCCa----UGGU--UCCCCUACgCGUCCuaCU- -5'
13956 3' -55.6 NC_003521.1 + 92076 0.78 0.42229
Target:  5'- gCGG-ACCGggggucGGGGGGUGCGCAGGgcGGu -3'
miRNA:   3'- -GCCaUGGU------UCCCCUACGCGUCCuaCU- -5'
13956 3' -55.6 NC_003521.1 + 92525 0.66 0.971306
Target:  5'- cCGGUAgcggcagcggcacCCAGGGaGGGU-CGaCGGGAUGGg -3'
miRNA:   3'- -GCCAU-------------GGUUCC-CCUAcGC-GUCCUACU- -5'
13956 3' -55.6 NC_003521.1 + 92717 0.69 0.86672
Target:  5'- gCGGgcaaGCCGAGcGGGGUGCGgGgaggcugggGGGUGAg -3'
miRNA:   3'- -GCCa---UGGUUC-CCCUACGCgU---------CCUACU- -5'
13956 3' -55.6 NC_003521.1 + 103053 0.7 0.844004
Target:  5'- aGGUGCugcagaCAGGGcGGGUGCGCGGGc-GAg -3'
miRNA:   3'- gCCAUG------GUUCC-CCUACGCGUCCuaCU- -5'
13956 3' -55.6 NC_003521.1 + 103097 0.7 0.851767
Target:  5'- gGGaUGCgAAGGGGGcggauagGaCGCGGGGUGAg -3'
miRNA:   3'- gCC-AUGgUUCCCCUa------C-GCGUCCUACU- -5'
13956 3' -55.6 NC_003521.1 + 109726 0.71 0.775918
Target:  5'- aGGagGCCAGGuGGGAcuUGUGCAGGGUc- -3'
miRNA:   3'- gCCa-UGGUUC-CCCU--ACGCGUCCUAcu -5'
13956 3' -55.6 NC_003521.1 + 110451 0.67 0.928834
Target:  5'- uGGUGcCCAGGGGGAggaauuccUGCuccagGCAGGG-GAu -3'
miRNA:   3'- gCCAU-GGUUCCCCU--------ACG-----CGUCCUaCU- -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.