miRNA display CGI


Results 1 - 20 of 37 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
22930 3' -52 NC_005137.2 + 46790 0.66 0.979286
Target:  5'- --cUUAGCGCCGCUGuC-CACCaugGCg -3'
miRNA:   3'- ucaAAUUGCGGCGGCuGaGUGGca-UG- -5'
22930 3' -52 NC_005137.2 + 128691 0.66 0.976873
Target:  5'- ----aAACGCCGCCaGCaauacaaugauaUCGCCGUGu -3'
miRNA:   3'- ucaaaUUGCGGCGGcUG------------AGUGGCAUg -5'
22930 3' -52 NC_005137.2 + 99805 0.66 0.976873
Target:  5'- gAGgu---CGCCGCgCGugUaCGCCGUAa -3'
miRNA:   3'- -UCaaauuGCGGCG-GCugA-GUGGCAUg -5'
22930 3' -52 NC_005137.2 + 62215 0.66 0.974259
Target:  5'- gAGUUU-GCGCUGCCGcgauCUguCCGcUGCa -3'
miRNA:   3'- -UCAAAuUGCGGCGGCu---GAguGGC-AUG- -5'
22930 3' -52 NC_005137.2 + 71203 0.66 0.971437
Target:  5'- gAGUUUAugGacaagaCCGCCGAgCUCAauuugcgcUCGUGCc -3'
miRNA:   3'- -UCAAAUugC------GGCGGCU-GAGU--------GGCAUG- -5'
22930 3' -52 NC_005137.2 + 55579 0.66 0.971437
Target:  5'- ---aUGGCGgaCGCgGGCggCGCCGUGCg -3'
miRNA:   3'- ucaaAUUGCg-GCGgCUGa-GUGGCAUG- -5'
22930 3' -52 NC_005137.2 + 93908 0.66 0.971437
Target:  5'- cGUaUGcCGCCauguuuGCCGugUCAUUGUGCa -3'
miRNA:   3'- uCAaAUuGCGG------CGGCugAGUGGCAUG- -5'
22930 3' -52 NC_005137.2 + 44075 0.66 0.971437
Target:  5'- cGGUUUcguaAGCGCUGCUGGCUuCGCUaucgcugcugGUGCu -3'
miRNA:   3'- -UCAAA----UUGCGGCGGCUGA-GUGG----------CAUG- -5'
22930 3' -52 NC_005137.2 + 176 0.67 0.965138
Target:  5'- gAGUUUGcgccugacGCGCCGCUG-UUCACUGg-- -3'
miRNA:   3'- -UCAAAU--------UGCGGCGGCuGAGUGGCaug -5'
22930 3' -52 NC_005137.2 + 45825 0.67 0.961649
Target:  5'- --gUUGGCGCCGCCGcC-CACguuggUGUACa -3'
miRNA:   3'- ucaAAUUGCGGCGGCuGaGUG-----GCAUG- -5'
22930 3' -52 NC_005137.2 + 104702 0.67 0.961649
Target:  5'- gAGUccagcGCGCCGCCGuugUACgCGUACg -3'
miRNA:   3'- -UCAaau--UGCGGCGGCugaGUG-GCAUG- -5'
22930 3' -52 NC_005137.2 + 112571 0.67 0.957924
Target:  5'- ----cAACGCCGUacuugcacaaUGGCgCGCCGUGCg -3'
miRNA:   3'- ucaaaUUGCGGCG----------GCUGaGUGGCAUG- -5'
22930 3' -52 NC_005137.2 + 104059 0.67 0.957538
Target:  5'- uGUggccgUGGCGCCuucgucgugcuugGCCGGCUCGuuGUGa -3'
miRNA:   3'- uCAa----AUUGCGG-------------CGGCUGAGUggCAUg -5'
22930 3' -52 NC_005137.2 + 46056 0.67 0.953958
Target:  5'- aGGUU--AUGCCGCCG-CUgCACagCGUGCg -3'
miRNA:   3'- -UCAAauUGCGGCGGCuGA-GUG--GCAUG- -5'
22930 3' -52 NC_005137.2 + 71506 0.67 0.953958
Target:  5'- ----cAACGCgGCCGACgacggUACCGgACa -3'
miRNA:   3'- ucaaaUUGCGgCGGCUGa----GUGGCaUG- -5'
22930 3' -52 NC_005137.2 + 63412 0.68 0.949748
Target:  5'- gAGUUUGGCGCCGaaaaCGAa-CACCGc-- -3'
miRNA:   3'- -UCAAAUUGCGGCg---GCUgaGUGGCaug -5'
22930 3' -52 NC_005137.2 + 25852 0.68 0.948437
Target:  5'- ----aAGCGCCaacuacaacaacuuGUCG-CUCGCCGUGCa -3'
miRNA:   3'- ucaaaUUGCGG--------------CGGCuGAGUGGCAUG- -5'
22930 3' -52 NC_005137.2 + 32349 0.68 0.940579
Target:  5'- ----aAACGCCGCCGug-CGCCG-ACc -3'
miRNA:   3'- ucaaaUUGCGGCGGCugaGUGGCaUG- -5'
22930 3' -52 NC_005137.2 + 20523 0.68 0.935613
Target:  5'- uGUUacACGCaCGCCGACUgGuuGUGg -3'
miRNA:   3'- uCAAauUGCG-GCGGCUGAgUggCAUg -5'
22930 3' -52 NC_005137.2 + 50174 0.68 0.930392
Target:  5'- ----aAACGUCGaguCCGugUCGCCGUAg -3'
miRNA:   3'- ucaaaUUGCGGC---GGCugAGUGGCAUg -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.