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
17009 3' -50.2 NC_004333.2 + 13004 0.66 0.928594
Target:  5'- aGGU---UAUGCAACUGCcgGCGAuGGCGg -3'
miRNA:   3'- gCUAuacAUGCGUUGACG--CGCU-CUGC- -5'
17009 3' -50.2 NC_004333.2 + 31108 0.66 0.92258
Target:  5'- cCGAUGUuccgGCGCGGCUGgaacacCGCGAGcAUGa -3'
miRNA:   3'- -GCUAUAca--UGCGUUGAC------GCGCUC-UGC- -5'
17009 3' -50.2 NC_004333.2 + 8908 0.66 0.916267
Target:  5'- gCGAg--GUugGCGucgaUGCGCGAcGCGg -3'
miRNA:   3'- -GCUauaCAugCGUug--ACGCGCUcUGC- -5'
17009 3' -50.2 NC_004333.2 + 36113 0.66 0.915619
Target:  5'- -----cGUACGCAAgguuggcgacggcCUGCGCGAccGGCGc -3'
miRNA:   3'- gcuauaCAUGCGUU-------------GACGCGCU--CUGC- -5'
17009 3' -50.2 NC_004333.2 + 22250 0.66 0.909656
Target:  5'- aGAUAgcugaucGUGCGCu-CUGCGCcaagccagcccGAGACGc -3'
miRNA:   3'- gCUAUa------CAUGCGuuGACGCG-----------CUCUGC- -5'
17009 3' -50.2 NC_004333.2 + 37724 0.67 0.895552
Target:  5'- uCGAUGUcGgcaagcugcCGCGcCUGCGCGAGAuCGa -3'
miRNA:   3'- -GCUAUA-Cau-------GCGUuGACGCGCUCU-GC- -5'
17009 3' -50.2 NC_004333.2 + 46889 0.67 0.888067
Target:  5'- cCGAUcgcGUAaCGCAACcGCGCcAGGCGg -3'
miRNA:   3'- -GCUAua-CAU-GCGUUGaCGCGcUCUGC- -5'
17009 3' -50.2 NC_004333.2 + 443 0.67 0.888067
Target:  5'- cCGggGUGUACGaGGCcacgGCGCGcGACGu -3'
miRNA:   3'- -GCuaUACAUGCgUUGa---CGCGCuCUGC- -5'
17009 3' -50.2 NC_004333.2 + 27673 0.67 0.880299
Target:  5'- gCGAguc--GCGCAccugaacgcGCUGCaGCGAGACGu -3'
miRNA:   3'- -GCUauacaUGCGU---------UGACG-CGCUCUGC- -5'
17009 3' -50.2 NC_004333.2 + 4212 0.67 0.880299
Target:  5'- gGAUu----UGCAGCUGCGCGuuGACGc -3'
miRNA:   3'- gCUAuacauGCGUUGACGCGCu-CUGC- -5'
17009 3' -50.2 NC_004333.2 + 9293 0.67 0.872255
Target:  5'- gCGAagcg-GCGCGGgUGCGCG-GACGg -3'
miRNA:   3'- -GCUauacaUGCGUUgACGCGCuCUGC- -5'
17009 3' -50.2 NC_004333.2 + 24456 0.68 0.855368
Target:  5'- aCGAcGUccgACGCAACUcGCGCGAGcCa -3'
miRNA:   3'- -GCUaUAca-UGCGUUGA-CGCGCUCuGc -5'
17009 3' -50.2 NC_004333.2 + 15753 0.69 0.778526
Target:  5'- aCGAgacacucGUcaGCG-AGCUGCGCGAGGCGc -3'
miRNA:   3'- -GCUaua----CA--UGCgUUGACGCGCUCUGC- -5'
17009 3' -50.2 NC_004333.2 + 27561 0.7 0.746677
Target:  5'- uCGAauUGgcC-CGACUGCGCGAGGCc -3'
miRNA:   3'- -GCUauACauGcGUUGACGCGCUCUGc -5'
17009 3' -50.2 NC_004333.2 + 13649 0.7 0.746677
Target:  5'- gCGGUAcucGgGCAGCUGCGCGAGcagcACGa -3'
miRNA:   3'- -GCUAUacaUgCGUUGACGCGCUC----UGC- -5'
17009 3' -50.2 NC_004333.2 + 2948 0.7 0.724796
Target:  5'- ----cUGUAgcccUGCAGCUGCGCGAG-CGu -3'
miRNA:   3'- gcuauACAU----GCGUUGACGCGCUCuGC- -5'
17009 3' -50.2 NC_004333.2 + 28927 0.71 0.691256
Target:  5'- -cGUcgGUGCGUAGCggGCGCcGAGGCa -3'
miRNA:   3'- gcUAuaCAUGCGUUGa-CGCG-CUCUGc -5'
17009 3' -50.2 NC_004333.2 + 24172 0.71 0.679937
Target:  5'- cCGGUA-GUACGCAuccuGCaGCGCGAaugcGACGg -3'
miRNA:   3'- -GCUAUaCAUGCGU----UGaCGCGCU----CUGC- -5'
17009 3' -50.2 NC_004333.2 + 8294 0.72 0.634286
Target:  5'- uGAUGUagGUAgGCGGC-GCGCGGGGCu -3'
miRNA:   3'- gCUAUA--CAUgCGUUGaCGCGCUCUGc -5'
17009 3' -50.2 NC_004333.2 + 28740 0.73 0.599983
Target:  5'- aGGUcgGccaGCAACUGCGCGAG-CGc -3'
miRNA:   3'- gCUAuaCaugCGUUGACGCGCUCuGC- -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.