miRNA display CGI


Results 1 - 20 of 82 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
31009 3' -55.6 NC_006560.1 + 121501 1.1 0.002861
Target:  5'- gCUCCGGGGCCAGAAACUCGAGCUUGGu -3'
miRNA:   3'- -GAGGCCCCGGUCUUUGAGCUCGAACC- -5'
31009 3' -55.6 NC_006560.1 + 6619 0.78 0.338122
Target:  5'- gCUCgGGGGaCCGGggGCUCGggGGCUcGGg -3'
miRNA:   3'- -GAGgCCCC-GGUCuuUGAGC--UCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 32459 0.78 0.345768
Target:  5'- --aCGGGGCCGGggGCUgCGGGCUcccccgGGg -3'
miRNA:   3'- gagGCCCCGGUCuuUGA-GCUCGAa-----CC- -5'
31009 3' -55.6 NC_006560.1 + 35300 0.77 0.377575
Target:  5'- gUCCGGGGgcgcggCGGggGCUCGGGCUcGGc -3'
miRNA:   3'- gAGGCCCCg-----GUCuuUGAGCUCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 32692 0.76 0.401834
Target:  5'- -gCCGGGGCCGGggGCUCcgcccgaGGGCgcgcGGg -3'
miRNA:   3'- gaGGCCCCGGUCuuUGAG-------CUCGaa--CC- -5'
31009 3' -55.6 NC_006560.1 + 6777 0.75 0.465202
Target:  5'- gCUCgGGGGCuCGGggGCUCGGGg--GGa -3'
miRNA:   3'- -GAGgCCCCG-GUCuuUGAGCUCgaaCC- -5'
31009 3' -55.6 NC_006560.1 + 6735 0.73 0.552258
Target:  5'- gCUCgGGGGgaCCGGggGCUCGggGGCUcGGg -3'
miRNA:   3'- -GAGgCCCC--GGUCuuUGAGC--UCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 39899 0.73 0.552258
Target:  5'- uCUCCGucguucGGGCCGGGGugcGCUCGGGUggcUGGg -3'
miRNA:   3'- -GAGGC------CCCGGUCUU---UGAGCUCGa--ACC- -5'
31009 3' -55.6 NC_006560.1 + 6668 0.73 0.552258
Target:  5'- gCUCgGGGGgaCCGGggGCUCGggGGCUcGGg -3'
miRNA:   3'- -GAGgCCCC--GGUCuuUGAGC--UCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 32134 0.73 0.562273
Target:  5'- -cCCGGGGCCGGucACggcCGGGCggGGc -3'
miRNA:   3'- gaGGCCCCGGUCuuUGa--GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 32064 0.73 0.562273
Target:  5'- uCUCUGGGGgCAGggGCcgcagggCGGGCggGGg -3'
miRNA:   3'- -GAGGCCCCgGUCuuUGa------GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 74123 0.73 0.582443
Target:  5'- -gCCGcGGGCCAGggGCUCGucgcccGCaaGGa -3'
miRNA:   3'- gaGGC-CCCGGUCuuUGAGCu-----CGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 112512 0.73 0.602755
Target:  5'- --gCGGGGCCuGGAGCUC-AGCgUGGg -3'
miRNA:   3'- gagGCCCCGGuCUUUGAGcUCGaACC- -5'
31009 3' -55.6 NC_006560.1 + 85573 0.72 0.633367
Target:  5'- gCUCgGGGGCgGGggGCgcggCGGGCgcGGc -3'
miRNA:   3'- -GAGgCCCCGgUCuuUGa---GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 4545 0.72 0.653783
Target:  5'- -cCCGGGGgCGGggGCUCG-GCcccGGg -3'
miRNA:   3'- gaGGCCCCgGUCuuUGAGCuCGaa-CC- -5'
31009 3' -55.6 NC_006560.1 + 3319 0.72 0.653783
Target:  5'- -gCCGcGGGCCGGggGCgCGGGCgggcGGc -3'
miRNA:   3'- gaGGC-CCCGGUCuuUGaGCUCGaa--CC- -5'
31009 3' -55.6 NC_006560.1 + 6579 0.71 0.67413
Target:  5'- gCUCgGGGGCUcggggggacGGggGCUCGggGGCUcGGg -3'
miRNA:   3'- -GAGgCCCCGG---------UCuuUGAGC--UCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 15462 0.71 0.67413
Target:  5'- -gCCcGGGCCAGggGCUCGucCUccUGGg -3'
miRNA:   3'- gaGGcCCCGGUCuuUGAGCucGA--ACC- -5'
31009 3' -55.6 NC_006560.1 + 77263 0.71 0.678185
Target:  5'- -cCCGGGGCCccuGGAGCUgcgcgaggccaccagCGAGCU-GGa -3'
miRNA:   3'- gaGGCCCCGGu--CUUUGA---------------GCUCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 146957 0.71 0.684256
Target:  5'- -gUCaGGGCCGGggGC-CGGGCcUGGg -3'
miRNA:   3'- gaGGcCCCGGUCuuUGaGCUCGaACC- -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.