miRNA display CGI


Results 1 - 20 of 23 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
23716 3' -57.8 NC_005261.1 + 59427 0.66 0.777822
Target:  5'- uGUCgcgcGGCccggCAGGCGCCggCAGCa-- -3'
miRNA:   3'- gUAGa---CCGa---GUCCGCGGaaGUCGguu -5'
23716 3' -57.8 NC_005261.1 + 9153 0.66 0.768263
Target:  5'- aAUCgGGCUgGgaccuGGCGCCgccCGGCCAGg -3'
miRNA:   3'- gUAGaCCGAgU-----CCGCGGaa-GUCGGUU- -5'
23716 3' -57.8 NC_005261.1 + 110294 0.66 0.758577
Target:  5'- --cCUGGC--GGGCGCCUgcgCcGCCGAg -3'
miRNA:   3'- guaGACCGagUCCGCGGAa--GuCGGUU- -5'
23716 3' -57.8 NC_005261.1 + 14120 0.66 0.748774
Target:  5'- gCGUC-GGCUCGGGCGgUgggCAGUCGc -3'
miRNA:   3'- -GUAGaCCGAGUCCGCgGaa-GUCGGUu -5'
23716 3' -57.8 NC_005261.1 + 118911 0.66 0.748774
Target:  5'- gCGUCUGGgUCcGGCGCCgcgggcgCGGCg-- -3'
miRNA:   3'- -GUAGACCgAGuCCGCGGaa-----GUCGguu -5'
23716 3' -57.8 NC_005261.1 + 73346 0.66 0.738865
Target:  5'- uCGUCUccgcccggcgccGGCUCAGGCGgCgccagcagcgCGGCCAc -3'
miRNA:   3'- -GUAGA------------CCGAGUCCGCgGaa--------GUCGGUu -5'
23716 3' -57.8 NC_005261.1 + 47707 0.66 0.738865
Target:  5'- gCGUCggcGGCgUCGGGgGCCUccUCGGCgGAc -3'
miRNA:   3'- -GUAGa--CCG-AGUCCgCGGA--AGUCGgUU- -5'
23716 3' -57.8 NC_005261.1 + 13108 0.66 0.738865
Target:  5'- ----cGGCUCggGGGCGUCggCGGCCGc -3'
miRNA:   3'- guagaCCGAG--UCCGCGGaaGUCGGUu -5'
23716 3' -57.8 NC_005261.1 + 80115 0.66 0.738865
Target:  5'- ----cGGCUUGGGCGCCgcggCAGCg-- -3'
miRNA:   3'- guagaCCGAGUCCGCGGaa--GUCGguu -5'
23716 3' -57.8 NC_005261.1 + 54472 0.67 0.718765
Target:  5'- gGUCUGGCaucCGGGCGUCgggCGGCa-- -3'
miRNA:   3'- gUAGACCGa--GUCCGCGGaa-GUCGguu -5'
23716 3' -57.8 NC_005261.1 + 31863 0.67 0.718765
Target:  5'- gCGUCUucgGGC-CcGGCGCCUUCGcgcgcGCCGAg -3'
miRNA:   3'- -GUAGA---CCGaGuCCGCGGAAGU-----CGGUU- -5'
23716 3' -57.8 NC_005261.1 + 87497 0.67 0.688061
Target:  5'- cCGUgCUGGCgcgCAGGCGCUcgCcGCCGu -3'
miRNA:   3'- -GUA-GACCGa--GUCCGCGGaaGuCGGUu -5'
23716 3' -57.8 NC_005261.1 + 4953 0.67 0.688061
Target:  5'- ----cGGCcCAGGCGCCccCGGCCGc -3'
miRNA:   3'- guagaCCGaGUCCGCGGaaGUCGGUu -5'
23716 3' -57.8 NC_005261.1 + 123617 0.67 0.667332
Target:  5'- ----aGGUUCAGGCuGCCcaUCAGCCGc -3'
miRNA:   3'- guagaCCGAGUCCG-CGGa-AGUCGGUu -5'
23716 3' -57.8 NC_005261.1 + 15782 0.68 0.656919
Target:  5'- gCcgCUGGC--GGGCGCCgcccgcgCGGCCAGc -3'
miRNA:   3'- -GuaGACCGagUCCGCGGaa-----GUCGGUU- -5'
23716 3' -57.8 NC_005261.1 + 43443 0.68 0.63604
Target:  5'- --gCUGGCUC-GGCGCCUggacgUC-GCCGGg -3'
miRNA:   3'- guaGACCGAGuCCGCGGA-----AGuCGGUU- -5'
23716 3' -57.8 NC_005261.1 + 130229 0.68 0.625591
Target:  5'- gCGUCggcccGCUCAGGCGCCgc--GCCAGc -3'
miRNA:   3'- -GUAGac---CGAGUCCGCGGaaguCGGUU- -5'
23716 3' -57.8 NC_005261.1 + 50854 0.68 0.625591
Target:  5'- -cUgUGGCUCGcccaggucGGCGCCUUC-GCCGc -3'
miRNA:   3'- guAgACCGAGU--------CCGCGGAAGuCGGUu -5'
23716 3' -57.8 NC_005261.1 + 125889 0.69 0.583927
Target:  5'- --cUUGGCUgaAGGCGCCUg-AGCCAGa -3'
miRNA:   3'- guaGACCGAg-UCCGCGGAagUCGGUU- -5'
23716 3' -57.8 NC_005261.1 + 114341 0.7 0.522643
Target:  5'- --aCUGGCUCGagcGGCGCgUggccgCGGCCGAg -3'
miRNA:   3'- guaGACCGAGU---CCGCGgAa----GUCGGUU- -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.