miRNA display CGI


Results 1 - 20 of 26 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
29726 3' -54.7 NC_006273.1 + 187295 0.65 0.979925
Target:  5'- uGAACUGCGUCGCggaucccgUCACGGguuucaacagaucgACGUcGGUc -3'
miRNA:   3'- -UUUGGCGCAGUG--------AGUGCC--------------UGCAuCCA- -5'
29726 3' -54.7 NC_006273.1 + 86795 0.66 0.978381
Target:  5'- uGGACCGCGUagACgggCACGGGCGggaaaccGGa -3'
miRNA:   3'- -UUUGGCGCAg-UGa--GUGCCUGCau-----CCa -5'
29726 3' -54.7 NC_006273.1 + 139654 0.66 0.978381
Target:  5'- aAAACCaCG-UugUCGCGGACGUGGc- -3'
miRNA:   3'- -UUUGGcGCaGugAGUGCCUGCAUCca -5'
29726 3' -54.7 NC_006273.1 + 120469 0.66 0.976024
Target:  5'- aAAGuuGCGUguCUgAgUGGACGUGGGUu -3'
miRNA:   3'- -UUUggCGCAguGAgU-GCCUGCAUCCA- -5'
29726 3' -54.7 NC_006273.1 + 234919 0.66 0.970755
Target:  5'- -uGCCGCGggugugUCGCGGGCGUgugccGGGUg -3'
miRNA:   3'- uuUGGCGCagug--AGUGCCUGCA-----UCCA- -5'
29726 3' -54.7 NC_006273.1 + 88 0.66 0.970755
Target:  5'- -uGCCGCGggugugUCGCGGGCGUgugccGGGUg -3'
miRNA:   3'- uuUGGCGCagug--AGUGCCUGCA-----UCCA- -5'
29726 3' -54.7 NC_006273.1 + 194981 0.66 0.970755
Target:  5'- -uGCCGCGggugugUCGCGGGCGUgugccGGGUg -3'
miRNA:   3'- uuUGGCGCagug--AGUGCCUGCA-----UCCA- -5'
29726 3' -54.7 NC_006273.1 + 147117 0.66 0.96783
Target:  5'- aAAACCGCGUCAUgcuggCGCuGGACGccgAGa- -3'
miRNA:   3'- -UUUGGCGCAGUGa----GUG-CCUGCa--UCca -5'
29726 3' -54.7 NC_006273.1 + 122849 0.66 0.96783
Target:  5'- cGACCGCGUCAgaCG-GGGCGgcgacGGGUc -3'
miRNA:   3'- uUUGGCGCAGUgaGUgCCUGCa----UCCA- -5'
29726 3' -54.7 NC_006273.1 + 144103 0.67 0.964704
Target:  5'- uGGCCGCGcUgGCUCGCG-ACGaGGGUc -3'
miRNA:   3'- uUUGGCGC-AgUGAGUGCcUGCaUCCA- -5'
29726 3' -54.7 NC_006273.1 + 26171 0.67 0.961371
Target:  5'- gAAACCGCGUCGuCggaaACGGAgCGUaccAGGg -3'
miRNA:   3'- -UUUGGCGCAGU-Gag--UGCCU-GCA---UCCa -5'
29726 3' -54.7 NC_006273.1 + 104247 0.67 0.950081
Target:  5'- -cGCCGUGUUcggGCgagagCACGGGCGUGcGGa -3'
miRNA:   3'- uuUGGCGCAG---UGa----GUGCCUGCAU-CCa -5'
29726 3' -54.7 NC_006273.1 + 201161 0.68 0.941443
Target:  5'- --gUCGUGUCGCgaCAUGGACGUgcAGGg -3'
miRNA:   3'- uuuGGCGCAGUGa-GUGCCUGCA--UCCa -5'
29726 3' -54.7 NC_006273.1 + 111131 0.68 0.92677
Target:  5'- cGACCGUG-CugUUACGGAggcugcuguUGUAGGUa -3'
miRNA:   3'- uUUGGCGCaGugAGUGCCU---------GCAUCCA- -5'
29726 3' -54.7 NC_006273.1 + 172219 0.68 0.921417
Target:  5'- cGGCCGCGcCGCgagACGGACGcaAGGUa -3'
miRNA:   3'- uUUGGCGCaGUGag-UGCCUGCa-UCCA- -5'
29726 3' -54.7 NC_006273.1 + 204159 0.69 0.89771
Target:  5'- -uACCGUGUCGCcccgCACGGugGUccGUa -3'
miRNA:   3'- uuUGGCGCAGUGa---GUGCCugCAucCA- -5'
29726 3' -54.7 NC_006273.1 + 142801 0.69 0.891218
Target:  5'- cAGCCGcCGUCGCUggugggCACGGGCGUGcaccgcGGUc -3'
miRNA:   3'- uUUGGC-GCAGUGA------GUGCCUGCAU------CCA- -5'
29726 3' -54.7 NC_006273.1 + 147258 0.7 0.87044
Target:  5'- uGGCCGCGUCGCUgAUGGACa----- -3'
miRNA:   3'- uUUGGCGCAGUGAgUGCCUGcaucca -5'
29726 3' -54.7 NC_006273.1 + 79944 0.71 0.823466
Target:  5'- aGAAcCCGCGUCGCcgggCACGG-CGgcGGUa -3'
miRNA:   3'- -UUU-GGCGCAGUGa---GUGCCuGCauCCA- -5'
29726 3' -54.7 NC_006273.1 + 103067 0.71 0.815007
Target:  5'- cAAACCGC---ACUCGCGGcgACGUGGGUu -3'
miRNA:   3'- -UUUGGCGcagUGAGUGCC--UGCAUCCA- -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.