miRNA display CGI


Results 1 - 20 of 27 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
11613 3' -53.6 NC_003085.1 + 47983 0.66 0.829975
Target:  5'- gCGUCGagcaaGUCG-CGGAGGGaGgacGCGGCg -3'
miRNA:   3'- -GCAGCag---CAGCuGCUUCUC-Ca--CGUCG- -5'
11613 3' -53.6 NC_003085.1 + 30353 0.66 0.829069
Target:  5'- aCGU-GUUG-CGgaugacaGCGAAGcGGGUGCGGCg -3'
miRNA:   3'- -GCAgCAGCaGC-------UGCUUC-UCCACGUCG- -5'
11613 3' -53.6 NC_003085.1 + 631 0.66 0.820827
Target:  5'- gGUUGUgcugcgccaaggCGcUCGGCGcgaAAGAGGUGCuGCc -3'
miRNA:   3'- gCAGCA------------GC-AGCUGC---UUCUCCACGuCG- -5'
11613 3' -53.6 NC_003085.1 + 25757 0.66 0.820827
Target:  5'- gGcCGUC-UUGACgGAGGAGGcUGCuGCg -3'
miRNA:   3'- gCaGCAGcAGCUG-CUUCUCC-ACGuCG- -5'
11613 3' -53.6 NC_003085.1 + 38067 0.66 0.820827
Target:  5'- gGUgGUgCGUCG-CGGAGAcG-GCAGCg -3'
miRNA:   3'- gCAgCA-GCAGCuGCUUCUcCaCGUCG- -5'
11613 3' -53.6 NC_003085.1 + 23282 0.66 0.820827
Target:  5'- uCGUCGcgcaaaUCGUCcACGGcuauGGGGUGCcGCu -3'
miRNA:   3'- -GCAGC------AGCAGcUGCUu---CUCCACGuCG- -5'
11613 3' -53.6 NC_003085.1 + 32474 0.66 0.78234
Target:  5'- uCGUCGcCGUCGGCGucGcGGgcccGgAGCg -3'
miRNA:   3'- -GCAGCaGCAGCUGCuuCuCCa---CgUCG- -5'
11613 3' -53.6 NC_003085.1 + 16495 0.67 0.772298
Target:  5'- cCGUCGcugacggCGcCGAgGAAG-GGUGuCGGCa -3'
miRNA:   3'- -GCAGCa------GCaGCUgCUUCuCCAC-GUCG- -5'
11613 3' -53.6 NC_003085.1 + 18445 0.67 0.762111
Target:  5'- cCG-CGUCGUgGACGuccuGGAGGaGC-GCg -3'
miRNA:   3'- -GCaGCAGCAgCUGCu---UCUCCaCGuCG- -5'
11613 3' -53.6 NC_003085.1 + 49299 0.67 0.741345
Target:  5'- gCGUCG-CGUCGGCGucccGGGAGGcgaccuccCAGCu -3'
miRNA:   3'- -GCAGCaGCAGCUGC----UUCUCCac------GUCG- -5'
11613 3' -53.6 NC_003085.1 + 26451 0.67 0.741345
Target:  5'- aCGUCauguaccgccUCGUCGGCGggGAauucGUGCuGCa -3'
miRNA:   3'- -GCAGc---------AGCAGCUGCuuCUc---CACGuCG- -5'
11613 3' -53.6 NC_003085.1 + 12334 0.67 0.741345
Target:  5'- cCGUCGcCGUgccCGGCGu-GAcGGUGcCAGCa -3'
miRNA:   3'- -GCAGCaGCA---GCUGCuuCU-CCAC-GUCG- -5'
11613 3' -53.6 NC_003085.1 + 20005 0.68 0.709391
Target:  5'- cCG-CGUUGUUGAagccgggcaUGGAGAGGaagccuUGCAGCg -3'
miRNA:   3'- -GCaGCAGCAGCU---------GCUUCUCC------ACGUCG- -5'
11613 3' -53.6 NC_003085.1 + 28547 0.68 0.709391
Target:  5'- gCGUCGUCGccuacgacugcUgGACGGAGAa-UGCAGUg -3'
miRNA:   3'- -GCAGCAGC-----------AgCUGCUUCUccACGUCG- -5'
11613 3' -53.6 NC_003085.1 + 23344 0.68 0.687688
Target:  5'- aCGgccgCGUCGUUGAUGAu--GGagGCAGCc -3'
miRNA:   3'- -GCa---GCAGCAGCUGCUucuCCa-CGUCG- -5'
11613 3' -53.6 NC_003085.1 + 22966 0.68 0.687688
Target:  5'- gCGaUGUCGgccacagacucCGGCGu-GGGGUGCAGCa -3'
miRNA:   3'- -GCaGCAGCa----------GCUGCuuCUCCACGUCG- -5'
11613 3' -53.6 NC_003085.1 + 20003 0.68 0.681131
Target:  5'- cCGcCGUCGUCGugGGgccgcaacucagccuGGAGGa-CGGCa -3'
miRNA:   3'- -GCaGCAGCAGCugCU---------------UCUCCacGUCG- -5'
11613 3' -53.6 NC_003085.1 + 47359 0.69 0.632682
Target:  5'- uGggCGcCGaUGGCGccGAGGUGCGGCg -3'
miRNA:   3'- gCa-GCaGCaGCUGCuuCUCCACGUCG- -5'
11613 3' -53.6 NC_003085.1 + 26711 0.69 0.632682
Target:  5'- gCGggCGUCGUCGGCGc--GGGUGUcggAGCc -3'
miRNA:   3'- -GCa-GCAGCAGCUGCuucUCCACG---UCG- -5'
11613 3' -53.6 NC_003085.1 + 2680 0.7 0.588598
Target:  5'- cCGUCaUCGUCG-CGGaggcGGAGGUGguGg -3'
miRNA:   3'- -GCAGcAGCAGCuGCU----UCUCCACguCg -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.