miRNA display CGI


Results 1 - 20 of 22 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
18234 3' -57.2 NC_004680.1 + 46131 0.66 0.678131
Target:  5'- aCGUGCCUgUuguguGAUCAUC-CCCG-CUCCa -3'
miRNA:   3'- -GCAUGGAgG-----UUGGUAGcGGGCgGAGG- -5'
18234 3' -57.2 NC_004680.1 + 58281 0.66 0.667485
Target:  5'- -aUACCaaCAACgCAUCGCCaaaGCCgCCg -3'
miRNA:   3'- gcAUGGagGUUG-GUAGCGGg--CGGaGG- -5'
18234 3' -57.2 NC_004680.1 + 23316 0.66 0.667485
Target:  5'- aCGUGCCcgacgagcuggCCGACCAgaugcCGCCCuccacauagguGCCUgCCg -3'
miRNA:   3'- -GCAUGGa----------GGUUGGUa----GCGGG-----------CGGA-GG- -5'
18234 3' -57.2 NC_004680.1 + 42385 0.66 0.667485
Target:  5'- --cACCaUCGGCCAgcaucCGCgCCGCUUCCu -3'
miRNA:   3'- gcaUGGaGGUUGGUa----GCG-GGCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 35194 0.66 0.656809
Target:  5'- cCGUcugaGCUUCCAugaCAUCuCgCGCCUCCu -3'
miRNA:   3'- -GCA----UGGAGGUug-GUAGcGgGCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 12543 0.67 0.613979
Target:  5'- gCGcACCggCAGCCAUCgGgCCGCCgCCa -3'
miRNA:   3'- -GCaUGGagGUUGGUAG-CgGGCGGaGG- -5'
18234 3' -57.2 NC_004680.1 + 26828 0.67 0.603286
Target:  5'- gGUGCCccgCCAACgAcCGCgUGCCUgCCa -3'
miRNA:   3'- gCAUGGa--GGUUGgUaGCGgGCGGA-GG- -5'
18234 3' -57.2 NC_004680.1 + 41742 0.67 0.592618
Target:  5'- --cACCgCCGACCc-CGCCCGCCgcaUCUg -3'
miRNA:   3'- gcaUGGaGGUUGGuaGCGGGCGG---AGG- -5'
18234 3' -57.2 NC_004680.1 + 18080 0.67 0.580918
Target:  5'- aGUGCCUUCAacguGCCGucggcaauaacuuUCGCCgCGCCcguaCCa -3'
miRNA:   3'- gCAUGGAGGU----UGGU-------------AGCGG-GCGGa---GG- -5'
18234 3' -57.2 NC_004680.1 + 28899 0.68 0.5399
Target:  5'- aGUGCCU-UggUgAUCGCgaUCGCCUCCg -3'
miRNA:   3'- gCAUGGAgGuuGgUAGCG--GGCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 22674 0.68 0.529533
Target:  5'- --gGCUUCgGguggguggggGCCGUCG-CCGCCUCCu -3'
miRNA:   3'- gcaUGGAGgU----------UGGUAGCgGGCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 34249 0.68 0.519239
Target:  5'- --gGCCUCCAgauGCC-UCGCCCGg-UCCg -3'
miRNA:   3'- gcaUGGAGGU---UGGuAGCGGGCggAGG- -5'
18234 3' -57.2 NC_004680.1 + 48863 0.69 0.498897
Target:  5'- gCGUGCCaaucugccggaUCCcaAACCGUgCGCgCGCUUCCc -3'
miRNA:   3'- -GCAUGG-----------AGG--UUGGUA-GCGgGCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 12702 0.69 0.469077
Target:  5'- gGUGCCaucgcgUCCAgcGCCAUgcCGCCgGCCUgCa -3'
miRNA:   3'- gCAUGG------AGGU--UGGUA--GCGGgCGGAgG- -5'
18234 3' -57.2 NC_004680.1 + 12883 0.69 0.449711
Target:  5'- --aGCCgcaCCAGCCAaacCGCCCGCgaUCCu -3'
miRNA:   3'- gcaUGGa--GGUUGGUa--GCGGGCGg-AGG- -5'
18234 3' -57.2 NC_004680.1 + 41195 0.69 0.449711
Target:  5'- gGUcaACCUCCAcacauggcaccACCAcgCGCCgCGCCUUUg -3'
miRNA:   3'- gCA--UGGAGGU-----------UGGUa-GCGG-GCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 33937 0.7 0.403317
Target:  5'- --cACCUcacgCCAACCAgCGUCCGUCUUCg -3'
miRNA:   3'- gcaUGGA----GGUUGGUaGCGGGCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 9937 0.7 0.403317
Target:  5'- gGUACCcaacgcgcggCCAGCCAccgCGCCaGCCUUCg -3'
miRNA:   3'- gCAUGGa---------GGUUGGUa--GCGGgCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 37728 0.71 0.376974
Target:  5'- --aGCCUUCAAcCCAUCGUuuuugaCCGCUUCCc -3'
miRNA:   3'- gcaUGGAGGUU-GGUAGCG------GGCGGAGG- -5'
18234 3' -57.2 NC_004680.1 + 23357 0.73 0.297855
Target:  5'- --cACCUCCAcgucACCGUCGUCgaaaGCUUCCg -3'
miRNA:   3'- gcaUGGAGGU----UGGUAGCGGg---CGGAGG- -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.