miRNA display CGI


Results 1 - 20 of 42 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
9436 3' -61.4 NC_002531.1 + 101287 0.66 0.614059
Target:  5'- uAAUGGCCgggGUCCCUGA-GCCCaauggguaCCUGu -3'
miRNA:   3'- -UUACCGGg--CAGGGGCUuUGGGg-------GGAC- -5'
9436 3' -61.4 NC_002531.1 + 119387 0.66 0.60403
Target:  5'- --gGGCCCucGUCUCCuucAGGCCCCUCUa -3'
miRNA:   3'- uuaCCGGG--CAGGGGc--UUUGGGGGGAc -5'
9436 3' -61.4 NC_002531.1 + 82506 0.67 0.564182
Target:  5'- cGUGGCCaCGgCCCCGAG-CUCCCg-- -3'
miRNA:   3'- uUACCGG-GCaGGGGCUUuGGGGGgac -5'
9436 3' -61.4 NC_002531.1 + 57134 0.68 0.505884
Target:  5'- ---uGCCUGUCCCUGAGucGCCUgaaugCCCUGg -3'
miRNA:   3'- uuacCGGGCAGGGGCUU--UGGG-----GGGAC- -5'
9436 3' -61.4 NC_002531.1 + 118222 0.68 0.476777
Target:  5'- -cUGGCCCcuuugGUCCCUcgGGGACCucuugagCCCCUGg -3'
miRNA:   3'- uuACCGGG-----CAGGGG--CUUUGG-------GGGGAC- -5'
9436 3' -61.4 NC_002531.1 + 118412 0.68 0.468482
Target:  5'- --aGGCCCcucugGUCCCUcGGGCCCCUCUu -3'
miRNA:   3'- uuaCCGGG-----CAGGGGcUUUGGGGGGAc -5'
9436 3' -61.4 NC_002531.1 + 100611 0.69 0.459353
Target:  5'- cAGUGGaCCC-UCCCCaccACCCCCCa- -3'
miRNA:   3'- -UUACC-GGGcAGGGGcuuUGGGGGGac -5'
9436 3' -61.4 NC_002531.1 + 55895 0.69 0.459353
Target:  5'- aGGUGGCCUGUCUgCag--UCCCCCUGg -3'
miRNA:   3'- -UUACCGGGCAGGgGcuuuGGGGGGAC- -5'
9436 3' -61.4 NC_002531.1 + 25670 0.7 0.398277
Target:  5'- --aGGCauaucuucaUCGUCCCaCGAuaacauGCCCCCCUGc -3'
miRNA:   3'- uuaCCG---------GGCAGGG-GCUu-----UGGGGGGAC- -5'
9436 3' -61.4 NC_002531.1 + 94365 0.7 0.389985
Target:  5'- --aGGCCgUGUCCCCGAccugAAUCUCCCg- -3'
miRNA:   3'- uuaCCGG-GCAGGGGCU----UUGGGGGGac -5'
9436 3' -61.4 NC_002531.1 + 119072 0.7 0.381806
Target:  5'- --gGGCCCucGUCUUCaucuGGCCCCCCUGg -3'
miRNA:   3'- uuaCCGGG--CAGGGGcu--UUGGGGGGAC- -5'
9436 3' -61.4 NC_002531.1 + 119258 0.7 0.381806
Target:  5'- --gGGCCCucGUCUUCaucuGGCCCCCCUGg -3'
miRNA:   3'- uuaCCGGG--CAGGGGcu--UUGGGGGGAC- -5'
9436 3' -61.4 NC_002531.1 + 114605 0.71 0.338163
Target:  5'- aGGUGGcCCCGUCCCCGGgcuggcuggcuagguGGCCCCg--- -3'
miRNA:   3'- -UUACC-GGGCAGGGGCU---------------UUGGGGggac -5'
9436 3' -61.4 NC_002531.1 + 114547 0.71 0.338163
Target:  5'- aGGUGGcCCCGUCCCCGGgcuggcuggcuagguGGCCCCg--- -3'
miRNA:   3'- -UUACC-GGGCAGGGGCU---------------UUGGGGggac -5'
9436 3' -61.4 NC_002531.1 + 114489 0.71 0.338163
Target:  5'- aGGUGGcCCCGUCCCCGGgcuggcuggcuagguGGCCCCg--- -3'
miRNA:   3'- -UUACC-GGGCAGGGGCU---------------UUGGGGggac -5'
9436 3' -61.4 NC_002531.1 + 114431 0.71 0.338163
Target:  5'- aGGUGGcCCCGUCCCCGGgcuggcuggcuagguGGCCCCg--- -3'
miRNA:   3'- -UUACC-GGGCAGGGGCU---------------UUGGGGggac -5'
9436 3' -61.4 NC_002531.1 + 114373 0.71 0.338163
Target:  5'- aGGUGGcCCCGUCCCCGGgcuggcuggcuagguGGCCCCg--- -3'
miRNA:   3'- -UUACC-GGGCAGGGGCU---------------UUGGGGggac -5'
9436 3' -61.4 NC_002531.1 + 114315 0.71 0.338163
Target:  5'- aGGUGGcCCCGUCCCCGGgcuggcuggcuagguGGCCCCg--- -3'
miRNA:   3'- -UUACC-GGGCAGGGGCU---------------UUGGGGggac -5'
9436 3' -61.4 NC_002531.1 + 114257 0.71 0.338163
Target:  5'- aGGUGGcCCCGUCCCCGGgcuggcuggcuagguGGCCCCg--- -3'
miRNA:   3'- -UUACC-GGGCAGGGGCU---------------UUGGGGggac -5'
9436 3' -61.4 NC_002531.1 + 114720 0.71 0.338163
Target:  5'- aGGUGGcCCCGUCCCCGGgcuggcuggcuagguGGCCCCg--- -3'
miRNA:   3'- -UUACC-GGGCAGGGGCU---------------UUGGGGggac -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.