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
12605 3' -57.6 NC_003345.1 + 22719 1.11 0.000741
Target:  5'- uCGUUCGAGCUGAAGCCGCCGGACGCCu -3'
miRNA:   3'- -GCAAGCUCGACUUCGGCGGCCUGCGG- -5'
12605 3' -57.6 NC_003345.1 + 72429 0.84 0.059658
Target:  5'- aGUaCGcGCUGGAGCCGCCGGGCGgCg -3'
miRNA:   3'- gCAaGCuCGACUUCGGCGGCCUGCgG- -5'
12605 3' -57.6 NC_003345.1 + 20465 0.75 0.261845
Target:  5'- gGUUCGAgagucGCUucGAGGUCGCCGGAgGUCu -3'
miRNA:   3'- gCAAGCU-----CGA--CUUCGGCGGCCUgCGG- -5'
12605 3' -57.6 NC_003345.1 + 15070 0.75 0.261845
Target:  5'- uGUUCgGAGC-GAAGcCCGCCGcGACuGCCg -3'
miRNA:   3'- gCAAG-CUCGaCUUC-GGCGGC-CUG-CGG- -5'
12605 3' -57.6 NC_003345.1 + 18160 0.73 0.30249
Target:  5'- cCGUUCGGGCcaUGAccGuuGCCGGACGaCUg -3'
miRNA:   3'- -GCAAGCUCG--ACUu-CggCGGCCUGC-GG- -5'
12605 3' -57.6 NC_003345.1 + 21806 0.7 0.461627
Target:  5'- ---cCGAGC--GAGCCGCUGGA-GCCg -3'
miRNA:   3'- gcaaGCUCGacUUCGGCGGCCUgCGG- -5'
12605 3' -57.6 NC_003345.1 + 58139 0.7 0.490585
Target:  5'- cCGgcugUCGAGCUGuucguAAGCauCGCCGGGgGCa -3'
miRNA:   3'- -GCa---AGCUCGAC-----UUCG--GCGGCCUgCGg -5'
12605 3' -57.6 NC_003345.1 + 42517 0.69 0.530443
Target:  5'- --cUCG-GCUGAaucGGUCGCgGGuCGCCg -3'
miRNA:   3'- gcaAGCuCGACU---UCGGCGgCCuGCGG- -5'
12605 3' -57.6 NC_003345.1 + 47106 0.69 0.530443
Target:  5'- aCGUcUCGucaaagacccGCaUGAAGCUcaccggGCCGGACGCCu -3'
miRNA:   3'- -GCA-AGCu---------CG-ACUUCGG------CGGCCUGCGG- -5'
12605 3' -57.6 NC_003345.1 + 50035 0.68 0.571421
Target:  5'- ------cGCcGGAGCCGCCGGA-GCCu -3'
miRNA:   3'- gcaagcuCGaCUUCGGCGGCCUgCGG- -5'
12605 3' -57.6 NC_003345.1 + 71040 0.68 0.571421
Target:  5'- -cUUCGGGCUGucGUCGuCCGGugGg- -3'
miRNA:   3'- gcAAGCUCGACuuCGGC-GGCCugCgg -5'
12605 3' -57.6 NC_003345.1 + 51454 0.68 0.589079
Target:  5'- uCGUUCGAuuaccucuaccggcGCUGGAGCCuCCGG-C-CCg -3'
miRNA:   3'- -GCAAGCU--------------CGACUUCGGcGGCCuGcGG- -5'
12605 3' -57.6 NC_003345.1 + 23069 0.68 0.602648
Target:  5'- cCGUUCGGGCc---GUCGUCGGACGa- -3'
miRNA:   3'- -GCAAGCUCGacuuCGGCGGCCUGCgg -5'
12605 3' -57.6 NC_003345.1 + 47533 0.67 0.623594
Target:  5'- uGUUcCGAcgagucGCUGAGaacGUCGCCGGA-GCCg -3'
miRNA:   3'- gCAA-GCU------CGACUU---CGGCGGCCUgCGG- -5'
12605 3' -57.6 NC_003345.1 + 46076 0.67 0.634081
Target:  5'- aCGUUCGAGagcGAGCCGgUGaGAgGCCc -3'
miRNA:   3'- -GCAAGCUCgacUUCGGCgGC-CUgCGG- -5'
12605 3' -57.6 NC_003345.1 + 33235 0.67 0.634081
Target:  5'- aCGUUCuccUUGAGGCCGuuGaACGCCg -3'
miRNA:   3'- -GCAAGcucGACUUCGGCggCcUGCGG- -5'
12605 3' -57.6 NC_003345.1 + 63189 0.66 0.686315
Target:  5'- --cUCGGcucucGCUGAGGgUGCUGGugGCg -3'
miRNA:   3'- gcaAGCU-----CGACUUCgGCGGCCugCGg -5'
12605 3' -57.6 NC_003345.1 + 16834 0.66 0.686315
Target:  5'- aCGUUCcccgauuguaGAGCaucAGCCGCCGGAacuUGCUc -3'
miRNA:   3'- -GCAAG----------CUCGacuUCGGCGGCCU---GCGG- -5'
12605 3' -57.6 NC_003345.1 + 33723 0.66 0.696657
Target:  5'- aGUUCGAGUcGguGUCGCCauAUGCCa -3'
miRNA:   3'- gCAAGCUCGaCuuCGGCGGccUGCGG- -5'
12605 3' -57.6 NC_003345.1 + 32592 0.66 0.696657
Target:  5'- --aUCGAGUccGAGGUCGCUcgGGugGCUc -3'
miRNA:   3'- gcaAGCUCGa-CUUCGGCGG--CCugCGG- -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.