miRNA display CGI


Results 1 - 17 of 17 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
18219 3' -57.7 NC_004680.1 + 17250 0.66 0.642923
Target:  5'- gGUgGCGGGaccuGCGGCGgGUUCGUCGGa- -3'
miRNA:   3'- gCA-UGCCC----CGUUGUgCAAGCGGCCca -5'
18219 3' -57.7 NC_004680.1 + 58740 0.66 0.63224
Target:  5'- gGUugGGGaGC--CGCGgUCGCCGGa- -3'
miRNA:   3'- gCAugCCC-CGuuGUGCaAGCGGCCca -5'
18219 3' -57.7 NC_004680.1 + 26784 0.66 0.63224
Target:  5'- gCGUGgacuuCGcGGGCGACcUGUUCGC-GGGUg -3'
miRNA:   3'- -GCAU-----GC-CCCGUUGuGCAAGCGgCCCA- -5'
18219 3' -57.7 NC_004680.1 + 40691 0.66 0.63224
Target:  5'- --cGCGGGGCucugcGCACGUcgUGgCGGGc -3'
miRNA:   3'- gcaUGCCCCGu----UGUGCAa-GCgGCCCa -5'
18219 3' -57.7 NC_004680.1 + 16290 0.66 0.621557
Target:  5'- gCGU-UGGGGCGugACGUuuuUCGCgGcGGa -3'
miRNA:   3'- -GCAuGCCCCGUugUGCA---AGCGgC-CCa -5'
18219 3' -57.7 NC_004680.1 + 5806 0.66 0.610883
Target:  5'- uGUACGGcGGCAAgguUGUUCGCCcgacuGGUg -3'
miRNA:   3'- gCAUGCC-CCGUUgu-GCAAGCGGc----CCA- -5'
18219 3' -57.7 NC_004680.1 + 54965 0.66 0.600226
Target:  5'- --gACGGGGcCGGCACGaUCGguggCGGGUc -3'
miRNA:   3'- gcaUGCCCC-GUUGUGCaAGCg---GCCCA- -5'
18219 3' -57.7 NC_004680.1 + 11692 0.67 0.568442
Target:  5'- --aACGGGGCAGCAgcaagGUUCGCCa--- -3'
miRNA:   3'- gcaUGCCCCGUUGUg----CAAGCGGccca -5'
18219 3' -57.7 NC_004680.1 + 47902 0.67 0.537095
Target:  5'- cCGUACGGGGaucCGACACcggaGCCGcGGg -3'
miRNA:   3'- -GCAUGCCCC---GUUGUGcaagCGGC-CCa -5'
18219 3' -57.7 NC_004680.1 + 7255 0.67 0.537095
Target:  5'- uCGUGuCGGuGC-ACACGUUCGCCGcGUc -3'
miRNA:   3'- -GCAU-GCCcCGuUGUGCAAGCGGCcCA- -5'
18219 3' -57.7 NC_004680.1 + 2495 0.68 0.506368
Target:  5'- gCGuUGCGGGcGCGGCGCaUUUGgCGGGa -3'
miRNA:   3'- -GC-AUGCCC-CGUUGUGcAAGCgGCCCa -5'
18219 3' -57.7 NC_004680.1 + 38852 0.68 0.496291
Target:  5'- gCGggggGCGGGGgAAcCAUGcccgCGCCGGGa -3'
miRNA:   3'- -GCa---UGCCCCgUU-GUGCaa--GCGGCCCa -5'
18219 3' -57.7 NC_004680.1 + 17175 0.69 0.465655
Target:  5'- --cGCGGGGCcGCcaaucgaACGgcugCGCCGGGa -3'
miRNA:   3'- gcaUGCCCCGuUG-------UGCaa--GCGGCCCa -5'
18219 3' -57.7 NC_004680.1 + 18964 0.71 0.334068
Target:  5'- uGUugGgcuuuuGGGUGGCACGgccgCGCCGGGg -3'
miRNA:   3'- gCAugC------CCCGUUGUGCaa--GCGGCCCa -5'
18219 3' -57.7 NC_004680.1 + 29054 0.72 0.289331
Target:  5'- aCGUGC-GGGCcGCGCGUUCGgCGGcGUc -3'
miRNA:   3'- -GCAUGcCCCGuUGUGCAAGCgGCC-CA- -5'
18219 3' -57.7 NC_004680.1 + 21608 0.72 0.288627
Target:  5'- uCGaGCGGGGUGACgcugcagGCGUUCucgGCCGGGg -3'
miRNA:   3'- -GCaUGCCCCGUUG-------UGCAAG---CGGCCCa -5'
18219 3' -57.7 NC_004680.1 + 44512 1.08 0.000886
Target:  5'- cCGUACGGGGCAACACGUUCGCCGGGUg -3'
miRNA:   3'- -GCAUGCCCCGUUGUGCAAGCGGCCCA- -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.