miRNA display CGI


Results 1 - 20 of 147 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
23820 3' -55.9 NC_005261.1 + 1175 0.75 0.407867
Target:  5'- gGCCcgCGCC----GCGGCCGGGGCCg -3'
miRNA:   3'- gUGGuaGUGGcacaUGCCGGUCUCGG- -5'
23820 3' -55.9 NC_005261.1 + 1401 0.66 0.893364
Target:  5'- gCGCCGcgGCCGcGgcgGCGGCgGGGGCg -3'
miRNA:   3'- -GUGGUagUGGCaCa--UGCCGgUCUCGg -5'
23820 3' -55.9 NC_005261.1 + 2236 0.67 0.857252
Target:  5'- cCGCCGcgCACCG---GCGGCCAcucaGGCCg -3'
miRNA:   3'- -GUGGUa-GUGGCacaUGCCGGUc---UCGG- -5'
23820 3' -55.9 NC_005261.1 + 2605 0.67 0.849391
Target:  5'- cCGCCGUCggcggcggggccGCCGg--GCGGCaUGGGGCCc -3'
miRNA:   3'- -GUGGUAG------------UGGCacaUGCCG-GUCUCGG- -5'
23820 3' -55.9 NC_005261.1 + 2933 0.66 0.906228
Target:  5'- gCACCucCACCGcc-GCGGCCGGgcuccGGCCc -3'
miRNA:   3'- -GUGGuaGUGGCacaUGCCGGUC-----UCGG- -5'
23820 3' -55.9 NC_005261.1 + 3337 0.66 0.902467
Target:  5'- cCACCcgCGCCGcGgcgcccggcgcgcCGGCCuucAGGGCCg -3'
miRNA:   3'- -GUGGuaGUGGCaCau-----------GCCGG---UCUCGG- -5'
23820 3' -55.9 NC_005261.1 + 3856 0.67 0.857252
Target:  5'- gCGCCggCGCCGc--GCGGCCGgcGAGCa -3'
miRNA:   3'- -GUGGuaGUGGCacaUGCCGGU--CUCGg -5'
23820 3' -55.9 NC_005261.1 + 10130 0.68 0.807257
Target:  5'- cCACCAcCGCCGccaUGagccACGGCCAGcccuGCCc -3'
miRNA:   3'- -GUGGUaGUGGC---ACa---UGCCGGUCu---CGG- -5'
23820 3' -55.9 NC_005261.1 + 12622 0.71 0.620376
Target:  5'- cCGCCAcCACgGUGUaguccggcGCGGUCuGGGGCCg -3'
miRNA:   3'- -GUGGUaGUGgCACA--------UGCCGG-UCUCGG- -5'
23820 3' -55.9 NC_005261.1 + 13432 0.66 0.879579
Target:  5'- cCGCgCGUCgACCGgGUGCaggcaGGCCGGcGCCu -3'
miRNA:   3'- -GUG-GUAG-UGGCaCAUG-----CCGGUCuCGG- -5'
23820 3' -55.9 NC_005261.1 + 14218 0.71 0.671655
Target:  5'- gCACCAaCGCgCGcgGUGaagaccgcgcCGGCCGGGGCCu -3'
miRNA:   3'- -GUGGUaGUG-GCa-CAU----------GCCGGUCUCGG- -5'
23820 3' -55.9 NC_005261.1 + 15202 0.67 0.841332
Target:  5'- cCGCCAUCGCgCGgucGUAgaGGCUcgccGAGCCg -3'
miRNA:   3'- -GUGGUAGUG-GCa--CAUg-CCGGu---CUCGG- -5'
23820 3' -55.9 NC_005261.1 + 15282 0.67 0.857252
Target:  5'- cCGCCGgggCGCgCG-GUcGCGGCCuccgggucgucGGAGCCg -3'
miRNA:   3'- -GUGGUa--GUG-GCaCA-UGCCGG-----------UCUCGG- -5'
23820 3' -55.9 NC_005261.1 + 15326 0.68 0.824647
Target:  5'- -cCCGUCgaaGCCGUGcacaaacGCGGCCAGGGg- -3'
miRNA:   3'- guGGUAG---UGGCACa------UGCCGGUCUCgg -5'
23820 3' -55.9 NC_005261.1 + 15783 0.67 0.864907
Target:  5'- cCGCUGgcgggCGCCGcccGcGCGGCCAGcGCCg -3'
miRNA:   3'- -GUGGUa----GUGGCa--CaUGCCGGUCuCGG- -5'
23820 3' -55.9 NC_005261.1 + 15923 0.68 0.824647
Target:  5'- aGCCGggGCCGg----GGCCGGGGCCc -3'
miRNA:   3'- gUGGUagUGGCacaugCCGGUCUCGG- -5'
23820 3' -55.9 NC_005261.1 + 16252 0.66 0.886585
Target:  5'- -uCCG-CGCCGgg-GCcGCCGGGGCCg -3'
miRNA:   3'- guGGUaGUGGCacaUGcCGGUCUCGG- -5'
23820 3' -55.9 NC_005261.1 + 16297 0.69 0.770628
Target:  5'- gCGCCGUCggGCCcagcgGCGGCCGG-GCCc -3'
miRNA:   3'- -GUGGUAG--UGGcaca-UGCCGGUCuCGG- -5'
23820 3' -55.9 NC_005261.1 + 16699 0.68 0.786472
Target:  5'- gCGCCGUCgauguacagcgcgcGCCG-GUACuGGCCcucggcGAGCCg -3'
miRNA:   3'- -GUGGUAG--------------UGGCaCAUG-CCGGu-----CUCGG- -5'
23820 3' -55.9 NC_005261.1 + 19548 0.66 0.912307
Target:  5'- cCGCCAgCGCCGUGgggaGcGCCAGcgGGCg -3'
miRNA:   3'- -GUGGUaGUGGCACaug-C-CGGUC--UCGg -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.