miRNA display CGI


Results 1 - 20 of 30 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
18142 3' -52.4 NC_004680.1 + 33113 0.66 0.903275
Target:  5'- gCCGcGACGUCGaAGAggGCCGCA--UCg -3'
miRNA:   3'- gGGC-CUGCAGCgUUUa-UGGCGUcuAG- -5'
18142 3' -52.4 NC_004680.1 + 4175 0.66 0.903275
Target:  5'- gCCCGGAUGaaugggcaUCaGCGAguuuuugcgGUACCGCAuGGUUg -3'
miRNA:   3'- -GGGCCUGC--------AG-CGUU---------UAUGGCGU-CUAG- -5'
18142 3' -52.4 NC_004680.1 + 39717 0.66 0.903275
Target:  5'- -aUGGAgCGcCGCAGAgagcGCCGCAGGg- -3'
miRNA:   3'- ggGCCU-GCaGCGUUUa---UGGCGUCUag -5'
18142 3' -52.4 NC_004680.1 + 30737 0.66 0.896341
Target:  5'- gUuuGGAUG-CGCAGGgcgacgGCUGgCAGGUCg -3'
miRNA:   3'- -GggCCUGCaGCGUUUa-----UGGC-GUCUAG- -5'
18142 3' -52.4 NC_004680.1 + 36149 0.66 0.889138
Target:  5'- gCCGGACGcaucccaugccCGCAGGgcggcgaggACCGCuGGUCu -3'
miRNA:   3'- gGGCCUGCa----------GCGUUUa--------UGGCGuCUAG- -5'
18142 3' -52.4 NC_004680.1 + 28695 0.66 0.889138
Target:  5'- aCCCGGcgacacacaagAgGUcCGCAAcgccAUAUgGCAGAUCg -3'
miRNA:   3'- -GGGCC-----------UgCA-GCGUU----UAUGgCGUCUAG- -5'
18142 3' -52.4 NC_004680.1 + 10368 0.66 0.889138
Target:  5'- aUCCGGGCgGUUGagaaGAAUGCUGcCGGGUUc -3'
miRNA:   3'- -GGGCCUG-CAGCg---UUUAUGGC-GUCUAG- -5'
18142 3' -52.4 NC_004680.1 + 9228 0.66 0.88167
Target:  5'- gCgCGGugGcgcgugcuguUCGCGGggGCCGCuGGUCu -3'
miRNA:   3'- -GgGCCugC----------AGCGUUuaUGGCGuCUAG- -5'
18142 3' -52.4 NC_004680.1 + 16938 0.66 0.88167
Target:  5'- cCCCaGucGCGggGCAGGUGCCGguGGUg -3'
miRNA:   3'- -GGGcC--UGCagCGUUUAUGGCguCUAg -5'
18142 3' -52.4 NC_004680.1 + 11889 0.66 0.873943
Target:  5'- gCCCGGGgGUUGCAGAcggcgccCCGgGGAg- -3'
miRNA:   3'- -GGGCCUgCAGCGUUUau-----GGCgUCUag -5'
18142 3' -52.4 NC_004680.1 + 25054 0.66 0.873943
Target:  5'- uCCCGGugG-CGguGggGCCGgucgGGAUCg -3'
miRNA:   3'- -GGGCCugCaGCguUuaUGGCg---UCUAG- -5'
18142 3' -52.4 NC_004680.1 + 54549 0.67 0.857736
Target:  5'- -gCGGGCGUCaGCGAGUGCgUGguGcUCg -3'
miRNA:   3'- ggGCCUGCAG-CGUUUAUG-GCguCuAG- -5'
18142 3' -52.4 NC_004680.1 + 29638 0.67 0.840575
Target:  5'- gCCCGGuCGaaGCAGGaACgCGCAGAgaUCa -3'
miRNA:   3'- -GGGCCuGCagCGUUUaUG-GCGUCU--AG- -5'
18142 3' -52.4 NC_004680.1 + 59446 0.67 0.831659
Target:  5'- cCCCGGGggggGUUGCuggggGGGUGuuuCCGCAGGUCa -3'
miRNA:   3'- -GGGCCUg---CAGCG-----UUUAU---GGCGUCUAG- -5'
18142 3' -52.4 NC_004680.1 + 41847 0.67 0.831659
Target:  5'- gCuuGGACGggGCAGGU-CCaGCAGAUg -3'
miRNA:   3'- -GggCCUGCagCGUUUAuGG-CGUCUAg -5'
18142 3' -52.4 NC_004680.1 + 39645 0.67 0.831659
Target:  5'- -aCGGAgCGcCGCAGGgagcGCCGCAGGg- -3'
miRNA:   3'- ggGCCU-GCaGCGUUUa---UGGCGUCUag -5'
18142 3' -52.4 NC_004680.1 + 54783 0.68 0.792988
Target:  5'- --aGGGCGUCGguGAUGCgGUcguugagGGAUCg -3'
miRNA:   3'- gggCCUGCAGCguUUAUGgCG-------UCUAG- -5'
18142 3' -52.4 NC_004680.1 + 6347 0.68 0.778089
Target:  5'- aCCCGG-CGUCaccguaaggugacguGCAGcgACCGCAGc-- -3'
miRNA:   3'- -GGGCCuGCAG---------------CGUUuaUGGCGUCuag -5'
18142 3' -52.4 NC_004680.1 + 39849 0.69 0.743105
Target:  5'- -aCGGAgCGcCGCAGGgagcGCCGCAGAg- -3'
miRNA:   3'- ggGCCU-GCaGCGUUUa---UGGCGUCUag -5'
18142 3' -52.4 NC_004680.1 + 42479 0.69 0.743105
Target:  5'- uCCCGGA-GUgGguGGUGgaGCGGAUCg -3'
miRNA:   3'- -GGGCCUgCAgCguUUAUggCGUCUAG- -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.