miRNA display CGI


Results 1 - 20 of 35 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
23046 3' -60.6 NC_005178.1 + 2803 0.69 0.21866
Target:  5'- gCGGACcGCCuuGGUggccaCCUCGCCCagggCGGCg -3'
miRNA:   3'- -GCCUGuUGGu-CCA-----GGAGCGGGg---GCUG- -5'
23046 3' -60.6 NC_005178.1 + 4035 0.66 0.35946
Target:  5'- uCGGaacaGCGGCCGGG-CCUCGUCgUCGGu -3'
miRNA:   3'- -GCC----UGUUGGUCCaGGAGCGGgGGCUg -5'
23046 3' -60.6 NC_005178.1 + 5447 0.7 0.196879
Target:  5'- aGGugAGCCGGGUUCUUGCCga-GGCu -3'
miRNA:   3'- gCCugUUGGUCCAGGAGCGGgggCUG- -5'
23046 3' -60.6 NC_005178.1 + 5499 0.66 0.346154
Target:  5'- cCGGAUuacuuCCcacaucugcuggcggGGGcUCUUGCCCCCGACc -3'
miRNA:   3'- -GCCUGuu---GG---------------UCCaGGAGCGGGGGCUG- -5'
23046 3' -60.6 NC_005178.1 + 6948 0.66 0.342883
Target:  5'- uGGACGAagaCGGGcggaCgCUCGCCCCaggcCGACa -3'
miRNA:   3'- gCCUGUUg--GUCCa---G-GAGCGGGG----GCUG- -5'
23046 3' -60.6 NC_005178.1 + 8166 0.7 0.177016
Target:  5'- gGGACGACCAGGUCgUUCGCgaaauCCUCGu- -3'
miRNA:   3'- gCCUGUUGGUCCAG-GAGCG-----GGGGCug -5'
23046 3' -60.6 NC_005178.1 + 10705 0.7 0.20214
Target:  5'- gCGGAgacgcCGGCCGGGgCgUUGCgCCCCGGCu -3'
miRNA:   3'- -GCCU-----GUUGGUCCaGgAGCG-GGGGCUG- -5'
23046 3' -60.6 NC_005178.1 + 11169 0.7 0.196879
Target:  5'- uGGGCuuCCuGGUCCUgUGgCCCCGAa -3'
miRNA:   3'- gCCUGuuGGuCCAGGA-GCgGGGGCUg -5'
23046 3' -60.6 NC_005178.1 + 11866 0.7 0.177016
Target:  5'- aGGGCGGCCAGGgugUCCUgGUCCaugugcaggCCGGCc -3'
miRNA:   3'- gCCUGUUGGUCC---AGGAgCGGG---------GGCUG- -5'
23046 3' -60.6 NC_005178.1 + 14287 0.71 0.154706
Target:  5'- aGGu---CCAGGUCUUCGgCUCCGGCa -3'
miRNA:   3'- gCCuguuGGUCCAGGAGCgGGGGCUG- -5'
23046 3' -60.6 NC_005178.1 + 16037 0.67 0.303888
Target:  5'- cCGaACGGCUGGaGUaCCUCGCCCgCGAUg -3'
miRNA:   3'- -GCcUGUUGGUC-CA-GGAGCGGGgGCUG- -5'
23046 3' -60.6 NC_005178.1 + 16684 0.68 0.248112
Target:  5'- uGGGCGAUCAGG-CCggcgcaggcaUCGCCCaacugagCCGGCg -3'
miRNA:   3'- gCCUGUUGGUCCaGG----------AGCGGG-------GGCUG- -5'
23046 3' -60.6 NC_005178.1 + 17323 0.69 0.230304
Target:  5'- cCGGACGGCgGGG-CCgaggUCGCCCagcuCGGCa -3'
miRNA:   3'- -GCCUGUUGgUCCaGG----AGCGGGg---GCUG- -5'
23046 3' -60.6 NC_005178.1 + 17385 0.7 0.20214
Target:  5'- uGGGCGACCucGGcCC-CGCCgUCCGGCg -3'
miRNA:   3'- gCCUGUUGGu-CCaGGaGCGG-GGGCUG- -5'
23046 3' -60.6 NC_005178.1 + 18336 0.67 0.282174
Target:  5'- uGGugGACCgcgAGGUCCaggaGCgCCUGGCg -3'
miRNA:   3'- gCCugUUGG---UCCAGGag--CGgGGGCUG- -5'
23046 3' -60.6 NC_005178.1 + 18722 0.69 0.236928
Target:  5'- aCGGGCGcGCCGGGauagucaccuuacggCCUCGCCcagCCUGACc -3'
miRNA:   3'- -GCCUGU-UGGUCCa--------------GGAGCGG---GGGCUG- -5'
23046 3' -60.6 NC_005178.1 + 20255 0.66 0.35946
Target:  5'- gCGGccGCGACCuuuGG-CCUCuacaaCCCCGACg -3'
miRNA:   3'- -GCC--UGUUGGu--CCaGGAGcg---GGGGCUG- -5'
23046 3' -60.6 NC_005178.1 + 21188 0.67 0.303888
Target:  5'- uGGACGACCAGa-CCgUCGCCgCCacgGACg -3'
miRNA:   3'- gCCUGUUGGUCcaGG-AGCGG-GGg--CUG- -5'
23046 3' -60.6 NC_005178.1 + 21584 0.7 0.181808
Target:  5'- aGGACGACCAaaucGGcaucuaCUCGCCCCaGGCg -3'
miRNA:   3'- gCCUGUUGGU----CCag----GAGCGGGGgCUG- -5'
23046 3' -60.6 NC_005178.1 + 21597 0.67 0.303888
Target:  5'- aCGGugG-CCucgaaGUCCUCGUUCUCGACa -3'
miRNA:   3'- -GCCugUuGGuc---CAGGAGCGGGGGCUG- -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.