miRNA display CGI


Results 1 - 20 of 59 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
22939 3' -55.5 NC_005137.2 + 996 0.68 0.810494
Target:  5'- -aCGUCUgCuGCCAauucaacCCGUUUCAguGCCGCa -3'
miRNA:   3'- cgGCGGA-GuCGGU-------GGCAAAGU--UGGCG- -5'
22939 3' -55.5 NC_005137.2 + 3640 0.68 0.837064
Target:  5'- uGuuGUUUCcGCCACaaugUCGGCCGCg -3'
miRNA:   3'- -CggCGGAGuCGGUGgcaaAGUUGGCG- -5'
22939 3' -55.5 NC_005137.2 + 3691 0.66 0.889388
Target:  5'- aGCCGCCaacCGGUgcgUugCGUUguuccaaUCGACCGUg -3'
miRNA:   3'- -CGGCGGa--GUCG---GugGCAA-------AGUUGGCG- -5'
22939 3' -55.5 NC_005137.2 + 10672 0.67 0.864109
Target:  5'- --aGCCUCguuaauaaauacuuuGGCCACCGUuucguggcgUUCGAUgGCg -3'
miRNA:   3'- cggCGGAG---------------UCGGUGGCA---------AAGUUGgCG- -5'
22939 3' -55.5 NC_005137.2 + 13046 0.71 0.644966
Target:  5'- -gCGCUcguguUCGGCCACCuGUUUCGccCCGCg -3'
miRNA:   3'- cgGCGG-----AGUCGGUGG-CAAAGUu-GGCG- -5'
22939 3' -55.5 NC_005137.2 + 14311 0.66 0.903216
Target:  5'- uGCUGCugCUC-GUCGCCGUUgCuuCCGCu -3'
miRNA:   3'- -CGGCG--GAGuCGGUGGCAAaGuuGGCG- -5'
22939 3' -55.5 NC_005137.2 + 19020 0.67 0.868634
Target:  5'- -gCGCUUCAGCguguuCACCGUUUCGccccacaaCGCg -3'
miRNA:   3'- cgGCGGAGUCG-----GUGGCAAAGUug------GCG- -5'
22939 3' -55.5 NC_005137.2 + 20227 0.67 0.845258
Target:  5'- cGCCGCCUuuauaCGGCgGuuGUUUgCAACaGCa -3'
miRNA:   3'- -CGGCGGA-----GUCGgUggCAAA-GUUGgCG- -5'
22939 3' -55.5 NC_005137.2 + 20963 0.67 0.845258
Target:  5'- uGCUGCCUgCGG-CGCgCGUUUU-GCCGCg -3'
miRNA:   3'- -CGGCGGA-GUCgGUG-GCAAAGuUGGCG- -5'
22939 3' -55.5 NC_005137.2 + 24403 0.73 0.52272
Target:  5'- cGCgGCgUCAgGCCGCCGUUUCAAauugauaGCa -3'
miRNA:   3'- -CGgCGgAGU-CGGUGGCAAAGUUgg-----CG- -5'
22939 3' -55.5 NC_005137.2 + 24441 0.67 0.866381
Target:  5'- aGCCGUCugUCAGCgCGCCGUUcgUUAcagugcaauuuugcACCGUc -3'
miRNA:   3'- -CGGCGG--AGUCG-GUGGCAA--AGU--------------UGGCG- -5'
22939 3' -55.5 NC_005137.2 + 26223 0.67 0.845258
Target:  5'- cGCCGaCUgGGCCACCGU---AACCu- -3'
miRNA:   3'- -CGGCgGAgUCGGUGGCAaagUUGGcg -5'
22939 3' -55.5 NC_005137.2 + 27395 0.72 0.573004
Target:  5'- cGCCGUC-CGGCCAaaaGUagCGGCCGCu -3'
miRNA:   3'- -CGGCGGaGUCGGUgg-CAaaGUUGGCG- -5'
22939 3' -55.5 NC_005137.2 + 27455 0.67 0.876002
Target:  5'- cGCCGCC---GCCACCGU-UCAGgUGg -3'
miRNA:   3'- -CGGCGGaguCGGUGGCAaAGUUgGCg -5'
22939 3' -55.5 NC_005137.2 + 30623 0.69 0.752884
Target:  5'- cGCCGCCUCaacucuauaaaacgAGCCGCgcag-CAgaACCGCg -3'
miRNA:   3'- -CGGCGGAG--------------UCGGUGgcaaaGU--UGGCG- -5'
22939 3' -55.5 NC_005137.2 + 31405 0.66 0.915414
Target:  5'- -gCGCgUCA-CCaACCGUggCAGCUGCa -3'
miRNA:   3'- cgGCGgAGUcGG-UGGCAaaGUUGGCG- -5'
22939 3' -55.5 NC_005137.2 + 32355 0.72 0.603732
Target:  5'- uCUGCCaaacGCCGCCGUgcgcCGACCGCg -3'
miRNA:   3'- cGGCGGagu-CGGUGGCAaa--GUUGGCG- -5'
22939 3' -55.5 NC_005137.2 + 33041 0.69 0.784205
Target:  5'- cGCCGCC--GGCUACCGcgUCGucguACgCGCg -3'
miRNA:   3'- -CGGCGGagUCGGUGGCaaAGU----UG-GCG- -5'
22939 3' -55.5 NC_005137.2 + 33242 0.66 0.890069
Target:  5'- cGCCGCCgac-UCACCGU----ACCGCg -3'
miRNA:   3'- -CGGCGGagucGGUGGCAaaguUGGCG- -5'
22939 3' -55.5 NC_005137.2 + 33918 0.66 0.909435
Target:  5'- cGCCGCCgcgCacaauGGCCAUgCGuUUUCGguacaacgccGCCGCa -3'
miRNA:   3'- -CGGCGGa--G-----UCGGUG-GC-AAAGU----------UGGCG- -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.