miRNA display CGI


Results 1 - 20 of 33 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
16668 3' -54.5 NC_004156.1 + 68412 0.66 0.975048
Target:  5'- uGUUUGGCuGGCGGCUccUCGGaCUcgUCCa- -3'
miRNA:   3'- gCAAAUCG-CCGUCGA--AGUC-GG--AGGcg -5'
16668 3' -54.5 NC_004156.1 + 57350 0.68 0.939409
Target:  5'- aCGUUUucguuCGGCuGCUUCAGCaUCgGCu -3'
miRNA:   3'- -GCAAAuc---GCCGuCGAAGUCGgAGgCG- -5'
16668 3' -54.5 NC_004156.1 + 57269 0.68 0.939409
Target:  5'- aCGUUUucguuCGGCuGCUUCAGCaUCgGCu -3'
miRNA:   3'- -GCAAAuc---GCCGuCGAAGUCGgAGgCG- -5'
16668 3' -54.5 NC_004156.1 + 58035 0.68 0.918864
Target:  5'- -----uGCGcuuuGCuGCUUCAGCCUCgGCu -3'
miRNA:   3'- gcaaauCGC----CGuCGAAGUCGGAGgCG- -5'
16668 3' -54.5 NC_004156.1 + 58339 0.69 0.907194
Target:  5'- aCGUUUGGCGGCGuCcUCAucuGCCUUgCGCu -3'
miRNA:   3'- -GCAAAUCGCCGUcGaAGU---CGGAG-GCG- -5'
16668 3' -54.5 NC_004156.1 + 57302 0.69 0.905364
Target:  5'- gCGUUUAGCGGCuGCUUguuccucucuaauaCGuuuuuCCUCUGCa -3'
miRNA:   3'- -GCAAAUCGCCGuCGAA--------------GUc----GGAGGCG- -5'
16668 3' -54.5 NC_004156.1 + 57707 0.69 0.894606
Target:  5'- uCGUUUu---GCuGCUUCAGCCUCgGCu -3'
miRNA:   3'- -GCAAAucgcCGuCGAAGUCGGAGgCG- -5'
16668 3' -54.5 NC_004156.1 + 178408 0.7 0.874055
Target:  5'- uGUcUGGCGGUGGCUcuUguGCCagaCCGCu -3'
miRNA:   3'- gCAaAUCGCCGUCGA--AguCGGa--GGCG- -5'
16668 3' -54.5 NC_004156.1 + 210459 0.71 0.843724
Target:  5'- aCGgcuccuGCuGCGGCUgCGGCCUCUGCc -3'
miRNA:   3'- -GCaaau--CGcCGUCGAaGUCGGAGGCG- -5'
16668 3' -54.5 NC_004156.1 + 57440 0.71 0.810397
Target:  5'- aCGUUUAGCGGCuGCU--AGUUcaUCUGCa -3'
miRNA:   3'- -GCAAAUCGCCGuCGAagUCGG--AGGCG- -5'
16668 3' -54.5 NC_004156.1 + 58279 0.72 0.755844
Target:  5'- aCGUUUGGCuucGGCuGCUucagcaUCAGCCuUUCGCu -3'
miRNA:   3'- -GCAAAUCG---CCGuCGA------AGUCGG-AGGCG- -5'
16668 3' -54.5 NC_004156.1 + 58186 0.72 0.755844
Target:  5'- aCGUUUGGCuucGGCuGCUucagcaUCAGCCuUUCGCu -3'
miRNA:   3'- -GCAAAUCG---CCGuCGA------AGUCGG-AGGCG- -5'
16668 3' -54.5 NC_004156.1 + 58063 0.73 0.697456
Target:  5'- aCGUUUAGCGGCguccgcaucGGCUUUgcguuuGGCUUCgGCu -3'
miRNA:   3'- -GCAAAUCGCCG---------UCGAAG------UCGGAGgCG- -5'
16668 3' -54.5 NC_004156.1 + 58246 0.75 0.606808
Target:  5'- aCGUUUGGCuucGGCuGCUUCAGCaUCgGCu -3'
miRNA:   3'- -GCAAAUCG---CCGuCGAAGUCGgAGgCG- -5'
16668 3' -54.5 NC_004156.1 + 57383 0.76 0.576649
Target:  5'- gCGUUUGGCu---GCcUCAGCCUCCGCu -3'
miRNA:   3'- -GCAAAUCGccguCGaAGUCGGAGGCG- -5'
16668 3' -54.5 NC_004156.1 + 57824 0.77 0.507898
Target:  5'- aCGUUUGGCGGCuGCUUCAaUCUCaGCu -3'
miRNA:   3'- -GCAAAUCGCCGuCGAAGUcGGAGgCG- -5'
16668 3' -54.5 NC_004156.1 + 57530 0.77 0.498344
Target:  5'- aCGUUUAGCGGCGGCU--AGUUcaUCUGCa -3'
miRNA:   3'- -GCAAAUCGCCGUCGAagUCGG--AGGCG- -5'
16668 3' -54.5 NC_004156.1 + 57566 0.82 0.286459
Target:  5'- uCGUU---CaGCAGCUUCAGCCUCCGCu -3'
miRNA:   3'- -GCAAaucGcCGUCGAAGUCGGAGGCG- -5'
16668 3' -54.5 NC_004156.1 + 57476 0.82 0.286459
Target:  5'- uCGUU---CaGCAGCUUCAGCCUCCGCu -3'
miRNA:   3'- -GCAAaucGcCGUCGAAGUCGGAGGCG- -5'
16668 3' -54.5 NC_004156.1 + 57977 0.84 0.231665
Target:  5'- aGUUUGGCuGCcGCUUCAGCCUCgGCu -3'
miRNA:   3'- gCAAAUCGcCGuCGAAGUCGGAGgCG- -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.