miRNA display CGI


Results 1 - 20 of 62 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
23579 3' -56.1 NC_005261.1 + 19861 0.67 0.85772
Target:  5'- uCGGGCCGCgcgccccagcgcccGGCcGaGAGGCCGAGg-- -3'
miRNA:   3'- -GCUUGGCGa-------------CCGaC-CUCUGGCUCaag -5'
23579 3' -56.1 NC_005261.1 + 113639 0.68 0.804158
Target:  5'- aGGGCCGCcgGGaCUGGGGG-CGGGUg- -3'
miRNA:   3'- gCUUGGCGa-CC-GACCUCUgGCUCAag -5'
23579 3' -56.1 NC_005261.1 + 77238 0.68 0.804158
Target:  5'- gGAGCCGgaGGCgcgGGcguugcucgugaAGGCCGGGUc- -3'
miRNA:   3'- gCUUGGCgaCCGa--CC------------UCUGGCUCAag -5'
23579 3' -56.1 NC_005261.1 + 41334 0.67 0.821689
Target:  5'- aGAuCUGCUGGC-GGAcGCCGAGg-- -3'
miRNA:   3'- gCUuGGCGACCGaCCUcUGGCUCaag -5'
23579 3' -56.1 NC_005261.1 + 4452 0.67 0.821689
Target:  5'- gGAugcGCCGCacgagGGCgUGGAGGCaCGGGgcgUCg -3'
miRNA:   3'- gCU---UGGCGa----CCG-ACCUCUG-GCUCa--AG- -5'
23579 3' -56.1 NC_005261.1 + 51801 0.67 0.830197
Target:  5'- uGGACCacCUGGCgaUGGcGugCGGGUUCu -3'
miRNA:   3'- gCUUGGc-GACCG--ACCuCugGCUCAAG- -5'
23579 3' -56.1 NC_005261.1 + 213 0.67 0.838524
Target:  5'- cCGGGCCGCgccgGGCUGcGGGCCGc---- -3'
miRNA:   3'- -GCUUGGCGa---CCGACcUCUGGCucaag -5'
23579 3' -56.1 NC_005261.1 + 137884 0.67 0.838524
Target:  5'- cCGGGCCGCgccgGGCUGcGGGCCGc---- -3'
miRNA:   3'- -GCUUGGCGa---CCGACcUCUGGCucaag -5'
23579 3' -56.1 NC_005261.1 + 47234 0.67 0.84666
Target:  5'- --uGCCGCcGGCgacGAGGCCGAGg-- -3'
miRNA:   3'- gcuUGGCGaCCGac-CUCUGGCUCaag -5'
23579 3' -56.1 NC_005261.1 + 138039 0.68 0.795152
Target:  5'- gCGGcACCGCUGGCcccgGGAGcACCaGGggCg -3'
miRNA:   3'- -GCU-UGGCGACCGa---CCUC-UGGcUCaaG- -5'
23579 3' -56.1 NC_005261.1 + 356 0.68 0.795152
Target:  5'- gCGGcACCGCUGGCcccgGGAGcACCaGGggCg -3'
miRNA:   3'- -GCU-UGGCGACCGa---CCUC-UGGcUCaaG- -5'
23579 3' -56.1 NC_005261.1 + 35944 0.68 0.785998
Target:  5'- aCGAcccgcgGCCGCUGGCgcGGcAGGCCGAc--- -3'
miRNA:   3'- -GCU------UGGCGACCGa-CC-UCUGGCUcaag -5'
23579 3' -56.1 NC_005261.1 + 4560 0.71 0.606251
Target:  5'- gCGAGCCGUUGGCgccGGAGG-CGAGc-- -3'
miRNA:   3'- -GCUUGGCGACCGa--CCUCUgGCUCaag -5'
23579 3' -56.1 NC_005261.1 + 7989 0.71 0.606251
Target:  5'- aCGAGCCGCUGGCgcGGcgccugagcGGGCCGAcGcUCu -3'
miRNA:   3'- -GCUUGGCGACCGa-CC---------UCUGGCU-CaAG- -5'
23579 3' -56.1 NC_005261.1 + 124896 0.71 0.616521
Target:  5'- -cGACCGCUGGCcgcGcGAGugCGAGggCg -3'
miRNA:   3'- gcUUGGCGACCGa--C-CUCugGCUCaaG- -5'
23579 3' -56.1 NC_005261.1 + 121892 0.69 0.728459
Target:  5'- gGAGCCgGCgGGCaGGAGACCGGc--- -3'
miRNA:   3'- gCUUGG-CGaCCGaCCUCUGGCUcaag -5'
23579 3' -56.1 NC_005261.1 + 35091 0.69 0.728459
Target:  5'- cCGGuACCGCgagGcGCUGGAGAacCCGGGcgCg -3'
miRNA:   3'- -GCU-UGGCGa--C-CGACCUCU--GGCUCaaG- -5'
23579 3' -56.1 NC_005261.1 + 80855 0.69 0.738313
Target:  5'- cCGAGCUGCUGGCgGGcgucGGGCCGcgcgGGgaggUCg -3'
miRNA:   3'- -GCUUGGCGACCGaCC----UCUGGC----UCa---AG- -5'
23579 3' -56.1 NC_005261.1 + 60511 0.69 0.757733
Target:  5'- cCGGcGCCGCuUGGCUGGGGGgCGGcggUCg -3'
miRNA:   3'- -GCU-UGGCG-ACCGACCUCUgGCUca-AG- -5'
23579 3' -56.1 NC_005261.1 + 78286 0.68 0.776704
Target:  5'- gCGcGCCGCgcugcGGCUGGAGAUggccgacggCGAGcUCg -3'
miRNA:   3'- -GCuUGGCGa----CCGACCUCUG---------GCUCaAG- -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.