miRNA display CGI


Results 1 - 18 of 18 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
1422 5' -51.9 NC_001335.1 + 16477 0.66 0.881908
Target:  5'- gGuuGgGGGUgAUCGCgGuCAGCAUCGg -3'
miRNA:   3'- gUggCaUCCA-UAGCGgUuGUCGUAGC- -5'
1422 5' -51.9 NC_001335.1 + 22905 0.66 0.874014
Target:  5'- gACCGUcGGcAUCaCCGACGGCGUg- -3'
miRNA:   3'- gUGGCAuCCaUAGcGGUUGUCGUAgc -5'
1422 5' -51.9 NC_001335.1 + 50403 0.66 0.874014
Target:  5'- cCACCGaaggaaggcUAGGUAUgGCCAAgcugaAGCGuUCGa -3'
miRNA:   3'- -GUGGC---------AUCCAUAgCGGUUg----UCGU-AGC- -5'
1422 5' -51.9 NC_001335.1 + 38076 0.66 0.865854
Target:  5'- aGCgCGUAGGUGUUguagaGCCggUccuucuccccuGGCAUCGa -3'
miRNA:   3'- gUG-GCAUCCAUAG-----CGGuuG-----------UCGUAGC- -5'
1422 5' -51.9 NC_001335.1 + 16181 0.66 0.865854
Target:  5'- uCGCCGUAGcagcucCGCUGGuCGGCAUCGu -3'
miRNA:   3'- -GUGGCAUCcaua--GCGGUU-GUCGUAGC- -5'
1422 5' -51.9 NC_001335.1 + 44495 0.66 0.848773
Target:  5'- --aCGaAGGUAUgGCCGGCGGCGgguUCa -3'
miRNA:   3'- gugGCaUCCAUAgCGGUUGUCGU---AGc -5'
1422 5' -51.9 NC_001335.1 + 32678 0.67 0.839867
Target:  5'- aCGgCGgcGGcgGUgGCCAGCAGCAgucUCGc -3'
miRNA:   3'- -GUgGCauCCa-UAgCGGUUGUCGU---AGC- -5'
1422 5' -51.9 NC_001335.1 + 39912 0.67 0.830731
Target:  5'- aCGCCGUAGGgGUgGCCAggaACuGgAUCa -3'
miRNA:   3'- -GUGGCAUCCaUAgCGGU---UGuCgUAGc -5'
1422 5' -51.9 NC_001335.1 + 46241 0.68 0.792085
Target:  5'- uGCC-UGGGaucAUCGCCGA-GGCAUCGg -3'
miRNA:   3'- gUGGcAUCCa--UAGCGGUUgUCGUAGC- -5'
1422 5' -51.9 NC_001335.1 + 9858 0.68 0.792085
Target:  5'- uGCCGUGGGgcUCGgggagccugggaCCGucggguCGGCGUCGa -3'
miRNA:   3'- gUGGCAUCCauAGC------------GGUu-----GUCGUAGC- -5'
1422 5' -51.9 NC_001335.1 + 32851 0.69 0.729079
Target:  5'- gGCCGUc-GUcaccGUCGCCGACGGCG-CGg -3'
miRNA:   3'- gUGGCAucCA----UAGCGGUUGUCGUaGC- -5'
1422 5' -51.9 NC_001335.1 + 49314 0.7 0.639785
Target:  5'- gGCCGUA-GUAgcggcaaaccUCGCCGccGCAGCGUUGg -3'
miRNA:   3'- gUGGCAUcCAU----------AGCGGU--UGUCGUAGC- -5'
1422 5' -51.9 NC_001335.1 + 17722 0.7 0.628469
Target:  5'- cCGCCG-AGGgauUCGgCAACGGCAUgGa -3'
miRNA:   3'- -GUGGCaUCCau-AGCgGUUGUCGUAgC- -5'
1422 5' -51.9 NC_001335.1 + 22979 0.71 0.605859
Target:  5'- aCGCCGUcGGUGaUGCCGACGGUcggagcguuGUCGu -3'
miRNA:   3'- -GUGGCAuCCAUaGCGGUUGUCG---------UAGC- -5'
1422 5' -51.9 NC_001335.1 + 7578 0.71 0.594585
Target:  5'- gACCG-GGGUGUCgGCCGGCGcuuccagcGCGUCGu -3'
miRNA:   3'- gUGGCaUCCAUAG-CGGUUGU--------CGUAGC- -5'
1422 5' -51.9 NC_001335.1 + 34277 0.72 0.517101
Target:  5'- gGCCGgcGGUGUgCGCCGGuCGGCG-CGg -3'
miRNA:   3'- gUGGCauCCAUA-GCGGUU-GUCGUaGC- -5'
1422 5' -51.9 NC_001335.1 + 5617 0.73 0.454072
Target:  5'- uCACCG-AGGUcagcCGCCGACucAGCGUCGa -3'
miRNA:   3'- -GUGGCaUCCAua--GCGGUUG--UCGUAGC- -5'
1422 5' -51.9 NC_001335.1 + 50313 1 0.00838
Target:  5'- cCACCGUAGGUA-CGCCAACAGCAUCGg -3'
miRNA:   3'- -GUGGCAUCCAUaGCGGUUGUCGUAGC- -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.