miRNA display CGI


Results 1 - 20 of 25 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
23975 5' -51.1 NC_005262.1 + 30197 0.66 0.941657
Target:  5'- aCGAUCGUGGGCUUCgcGgcGGCcggcgugucgUCGCCc -3'
miRNA:   3'- -GCUAGCAUUCGGGGa-CuuUCG----------AGUGG- -5'
23975 5' -51.1 NC_005262.1 + 17885 0.66 0.936476
Target:  5'- gGAUCGUAuGCCggaUUGAGgcuGGCUUugCg -3'
miRNA:   3'- gCUAGCAUuCGGg--GACUU---UCGAGugG- -5'
23975 5' -51.1 NC_005262.1 + 60222 0.66 0.931012
Target:  5'- aGGUCGgcAAGCUgCUGAAGGaaUACCg -3'
miRNA:   3'- gCUAGCa-UUCGGgGACUUUCgaGUGG- -5'
23975 5' -51.1 NC_005262.1 + 48463 0.66 0.931012
Target:  5'- gCGGUCGUAA-CCCgaCUGAuAGCcggcCGCCa -3'
miRNA:   3'- -GCUAGCAUUcGGG--GACUuUCGa---GUGG- -5'
23975 5' -51.1 NC_005262.1 + 38594 0.66 0.931012
Target:  5'- cCGGcCGU--GCCCCcgGAGAGCcaCACCu -3'
miRNA:   3'- -GCUaGCAuuCGGGGa-CUUUCGa-GUGG- -5'
23975 5' -51.1 NC_005262.1 + 55826 0.66 0.931012
Target:  5'- aGGUCGUGAGCCgCUucgcGAAGUUCcagaacguGCCc -3'
miRNA:   3'- gCUAGCAUUCGGgGAc---UUUCGAG--------UGG- -5'
23975 5' -51.1 NC_005262.1 + 30127 0.66 0.931012
Target:  5'- aCGAUCGUGccGCUgCUGGucGCcgaagCGCCg -3'
miRNA:   3'- -GCUAGCAUu-CGGgGACUuuCGa----GUGG- -5'
23975 5' -51.1 NC_005262.1 + 9988 0.66 0.925262
Target:  5'- cCGAUCG--AGCCUgCUGGcAAGCgaugUCGCCg -3'
miRNA:   3'- -GCUAGCauUCGGG-GACU-UUCG----AGUGG- -5'
23975 5' -51.1 NC_005262.1 + 48086 0.67 0.912907
Target:  5'- uGGUCGcggGGGUgCCggGGAAGCUCGgCa -3'
miRNA:   3'- gCUAGCa--UUCGgGGa-CUUUCGAGUgG- -5'
23975 5' -51.1 NC_005262.1 + 3518 0.67 0.91226
Target:  5'- uGAUCcccGAGCgCgCUGAAgcgaugcGGCUCGCCg -3'
miRNA:   3'- gCUAGca-UUCGgG-GACUU-------UCGAGUGG- -5'
23975 5' -51.1 NC_005262.1 + 26334 0.67 0.895159
Target:  5'- -cAUCGUgucccacacgaggccGAGCCCCUG-GAGC-CACUu -3'
miRNA:   3'- gcUAGCA---------------UUCGGGGACuUUCGaGUGG- -5'
23975 5' -51.1 NC_005262.1 + 11819 0.67 0.890061
Target:  5'- aGAUCGcgAAGCCgagcaugcgcaacaCCUGAAgcagcAGCUCgGCCu -3'
miRNA:   3'- gCUAGCa-UUCGG--------------GGACUU-----UCGAG-UGG- -5'
23975 5' -51.1 NC_005262.1 + 1179 0.68 0.877131
Target:  5'- uGcgCGgAAGCCCagUGcGAGUUCGCCg -3'
miRNA:   3'- gCuaGCaUUCGGGg-ACuUUCGAGUGG- -5'
23975 5' -51.1 NC_005262.1 + 19452 0.68 0.877131
Target:  5'- uGggCGUuGGCCUC-GAu-GCUCACCg -3'
miRNA:   3'- gCuaGCAuUCGGGGaCUuuCGAGUGG- -5'
23975 5' -51.1 NC_005262.1 + 11197 0.68 0.843798
Target:  5'- uGAUCGUGcgcGCCaCCUgcaagaucGAGAGCcgCGCCg -3'
miRNA:   3'- gCUAGCAUu--CGG-GGA--------CUUUCGa-GUGG- -5'
23975 5' -51.1 NC_005262.1 + 38929 0.68 0.843798
Target:  5'- aGAUCGauGGCgCUCUGucguuuucgcAGCUCACCg -3'
miRNA:   3'- gCUAGCauUCG-GGGACuu--------UCGAGUGG- -5'
23975 5' -51.1 NC_005262.1 + 4418 0.69 0.83487
Target:  5'- cCGAUgGacGGCCCgc-GAGGCUCGCCg -3'
miRNA:   3'- -GCUAgCauUCGGGgacUUUCGAGUGG- -5'
23975 5' -51.1 NC_005262.1 + 43509 0.69 0.797057
Target:  5'- uCGAUCGgauagacguUGAGCgCCgcgccguuGAGCUCGCCg -3'
miRNA:   3'- -GCUAGC---------AUUCGgGGacu-----UUCGAGUGG- -5'
23975 5' -51.1 NC_005262.1 + 23879 0.7 0.787131
Target:  5'- cCGGUCGUucGUCCaccu--GCUCACCg -3'
miRNA:   3'- -GCUAGCAuuCGGGgacuuuCGAGUGG- -5'
23975 5' -51.1 NC_005262.1 + 19056 0.7 0.766793
Target:  5'- uCGAUUGcgAGGCCCUUGAc-GC-CGCCg -3'
miRNA:   3'- -GCUAGCa-UUCGGGGACUuuCGaGUGG- -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.