miRNA display CGI


Results 1 - 17 of 17 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
23890 3' -54.7 NC_005262.1 + 48422 0.66 0.783884
Target:  5'- -aUCCCGAacaCGAcGGAcGGCGG-CAUGAc -3'
miRNA:   3'- caAGGGCU---GCUaCCU-CCGCUaGUGCU- -5'
23890 3' -54.7 NC_005262.1 + 35162 0.67 0.764035
Target:  5'- -aUCCgGGCGAcgcUGGcGGCaaugaGGUCACGAc -3'
miRNA:   3'- caAGGgCUGCU---ACCuCCG-----CUAGUGCU- -5'
23890 3' -54.7 NC_005262.1 + 53621 0.67 0.747772
Target:  5'- cGUUCCCGAgccgggcguCGAcaUGGAcgcggcauucgccaaGGCGAUCGCc- -3'
miRNA:   3'- -CAAGGGCU---------GCU--ACCU---------------CCGCUAGUGcu -5'
23890 3' -54.7 NC_005262.1 + 33561 0.67 0.7333
Target:  5'- cGUgCUCGACGAgcucGAGGCcggcgaGAUCACGAu -3'
miRNA:   3'- -CAaGGGCUGCUac--CUCCG------CUAGUGCU- -5'
23890 3' -54.7 NC_005262.1 + 6872 0.68 0.701675
Target:  5'- -gUCCuCGGCGAUgccGGccGCGAUCGCGu -3'
miRNA:   3'- caAGG-GCUGCUA---CCucCGCUAGUGCu -5'
23890 3' -54.7 NC_005262.1 + 62684 0.68 0.690986
Target:  5'- --gCCCGGCGgcGGcAGGgGAgCGCGAc -3'
miRNA:   3'- caaGGGCUGCuaCC-UCCgCUaGUGCU- -5'
23890 3' -54.7 NC_005262.1 + 9889 0.68 0.680243
Target:  5'- -aUCUCGAacUGAUGGAucauGGCGAgcaCACGAu -3'
miRNA:   3'- caAGGGCU--GCUACCU----CCGCUa--GUGCU- -5'
23890 3' -54.7 NC_005262.1 + 25867 0.68 0.669455
Target:  5'- uUUCgaGACGAUcGAGGCGAagcacggcaUCACGAu -3'
miRNA:   3'- cAAGggCUGCUAcCUCCGCU---------AGUGCU- -5'
23890 3' -54.7 NC_005262.1 + 63658 0.69 0.647786
Target:  5'- -gUCuCCGGCGAcgcuuucugcuaUGGAGGuCGGUCGCc- -3'
miRNA:   3'- caAG-GGCUGCU------------ACCUCC-GCUAGUGcu -5'
23890 3' -54.7 NC_005262.1 + 45442 0.69 0.636926
Target:  5'- --cCCCGACGAguUGGAGGCacaCACa- -3'
miRNA:   3'- caaGGGCUGCU--ACCUCCGcuaGUGcu -5'
23890 3' -54.7 NC_005262.1 + 61555 0.69 0.604358
Target:  5'- -aUCUCGGCGAUccgggacGAGGCGGUgACGGu -3'
miRNA:   3'- caAGGGCUGCUAc------CUCCGCUAgUGCU- -5'
23890 3' -54.7 NC_005262.1 + 46178 0.71 0.508757
Target:  5'- --aCgCGACGGccGAGGCGAUCACGc -3'
miRNA:   3'- caaGgGCUGCUacCUCCGCUAGUGCu -5'
23890 3' -54.7 NC_005262.1 + 57467 0.71 0.488316
Target:  5'- ----gCGACGAUGGAGGuCGAggGCGAg -3'
miRNA:   3'- caaggGCUGCUACCUCC-GCUagUGCU- -5'
23890 3' -54.7 NC_005262.1 + 51261 0.72 0.47824
Target:  5'- -cUgCCGcCGcaacAUGGAGGCGAUCGCGu -3'
miRNA:   3'- caAgGGCuGC----UACCUCCGCUAGUGCu -5'
23890 3' -54.7 NC_005262.1 + 33525 0.72 0.458404
Target:  5'- --cCUgGACGAc-GAGGCGAUCGCGAc -3'
miRNA:   3'- caaGGgCUGCUacCUCCGCUAGUGCU- -5'
23890 3' -54.7 NC_005262.1 + 52403 0.78 0.190855
Target:  5'- --gCCgaGACGcUGGAGGCGAUCGCGGa -3'
miRNA:   3'- caaGGg-CUGCuACCUCCGCUAGUGCU- -5'
23890 3' -54.7 NC_005262.1 + 51874 1 0.006471
Target:  5'- uGUUCCCGACGAUGGAGGCGAUC-CGAa -3'
miRNA:   3'- -CAAGGGCUGCUACCUCCGCUAGuGCU- -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.