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
29198 3' -52.1 NC_006150.1 + 117859 0.66 0.996018
Target:  5'- -gAGGCGUCUgg-CUAUCC-CGGCCa -3'
miRNA:   3'- agUCUGUAGAaggGAUAGGaGUCGGg -5'
29198 3' -52.1 NC_006150.1 + 198035 0.66 0.995364
Target:  5'- aCGGGCGccaugCUgaUCCCUAUUCUUuGCCUc -3'
miRNA:   3'- aGUCUGUa----GA--AGGGAUAGGAGuCGGG- -5'
29198 3' -52.1 NC_006150.1 + 216118 0.66 0.993525
Target:  5'- -gAGACAgag-CCCUggggccuguuaaacGUCCUCAGCUa -3'
miRNA:   3'- agUCUGUagaaGGGA--------------UAGGAGUCGGg -5'
29198 3' -52.1 NC_006150.1 + 201038 0.67 0.986413
Target:  5'- -gAGAgugaGUCaUCUCUGUCCUCAGauaCCCa -3'
miRNA:   3'- agUCUg---UAGaAGGGAUAGGAGUC---GGG- -5'
29198 3' -52.1 NC_006150.1 + 54909 0.67 0.985408
Target:  5'- cUCGGACAUCaucucggaauccagUCCCgagCCgCAGCCg -3'
miRNA:   3'- -AGUCUGUAGa-------------AGGGauaGGaGUCGGg -5'
29198 3' -52.1 NC_006150.1 + 171358 0.67 0.984707
Target:  5'- -aAGACcUCUUCCCUAUCaccauGGaCCCg -3'
miRNA:   3'- agUCUGuAGAAGGGAUAGgag--UC-GGG- -5'
29198 3' -52.1 NC_006150.1 + 47743 0.68 0.982842
Target:  5'- cCAGACAUUgcugCCUcggCCUCAGCUUc -3'
miRNA:   3'- aGUCUGUAGaa--GGGauaGGAGUCGGG- -5'
29198 3' -52.1 NC_006150.1 + 171653 0.68 0.97364
Target:  5'- gCAGGCAUacaaUUCUgUGUCCUCAGaaCUCa -3'
miRNA:   3'- aGUCUGUAg---AAGGgAUAGGAGUC--GGG- -5'
29198 3' -52.1 NC_006150.1 + 149005 0.69 0.967888
Target:  5'- cCAG-CAUCagcUCCCg--CCUCGGUCCc -3'
miRNA:   3'- aGUCuGUAGa--AGGGauaGGAGUCGGG- -5'
29198 3' -52.1 NC_006150.1 + 158314 0.69 0.964701
Target:  5'- gUCuGuauCAUCUgUCCCUucaucugucUCCUCAGCCUg -3'
miRNA:   3'- -AGuCu--GUAGA-AGGGAu--------AGGAGUCGGG- -5'
29198 3' -52.1 NC_006150.1 + 109144 0.69 0.961298
Target:  5'- aCAGGCAUCca-CCUGUUCcgCGGCCg -3'
miRNA:   3'- aGUCUGUAGaagGGAUAGGa-GUCGGg -5'
29198 3' -52.1 NC_006150.1 + 32338 0.7 0.953826
Target:  5'- -gGGugGUCUUCCgCUGUCCgu-GCaCCa -3'
miRNA:   3'- agUCugUAGAAGG-GAUAGGaguCG-GG- -5'
29198 3' -52.1 NC_006150.1 + 168934 0.7 0.949327
Target:  5'- gUCGGuCAUCUgggCCgCUGUCCuggcaagUCGGUCCg -3'
miRNA:   3'- -AGUCuGUAGAa--GG-GAUAGG-------AGUCGGG- -5'
29198 3' -52.1 NC_006150.1 + 138049 0.7 0.945436
Target:  5'- cUCAG-CGcccugagccauUCUUCCCgcUCCUCcaaaGGCCCa -3'
miRNA:   3'- -AGUCuGU-----------AGAAGGGauAGGAG----UCGGG- -5'
29198 3' -52.1 NC_006150.1 + 83018 0.7 0.940889
Target:  5'- gUCGGAC-UUUUCCCUgccuaAUCUUCAGCa- -3'
miRNA:   3'- -AGUCUGuAGAAGGGA-----UAGGAGUCGgg -5'
29198 3' -52.1 NC_006150.1 + 164049 0.7 0.936104
Target:  5'- cUCAGACGUCUgucaagcuggCCCUucagacUCCUC-GUCCg -3'
miRNA:   3'- -AGUCUGUAGAa---------GGGAu-----AGGAGuCGGG- -5'
29198 3' -52.1 NC_006150.1 + 105990 0.71 0.93108
Target:  5'- gCGGACcUCcaUCCCaGUCCUCucuacAGCCCg -3'
miRNA:   3'- aGUCUGuAGa-AGGGaUAGGAG-----UCGGG- -5'
29198 3' -52.1 NC_006150.1 + 54659 0.71 0.925815
Target:  5'- -gGGACcacCUUUCCUAUCCgcuGGCCCa -3'
miRNA:   3'- agUCUGua-GAAGGGAUAGGag-UCGGG- -5'
29198 3' -52.1 NC_006150.1 + 119364 0.73 0.860229
Target:  5'- uUCAGACGg---CCCUggCCUCGGCUg -3'
miRNA:   3'- -AGUCUGUagaaGGGAuaGGAGUCGGg -5'
29198 3' -52.1 NC_006150.1 + 131458 0.74 0.792788
Target:  5'- cCAGGCAUCUcCUCgg-CCUCAGgCCCc -3'
miRNA:   3'- aGUCUGUAGAaGGGauaGGAGUC-GGG- -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.