miRNA display CGI


Results 1 - 20 of 21 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
26546 3' -53.8 NC_005357.1 + 31541 0.66 0.748902
Target:  5'- cGGUGGAggaaUACGCCG-C-GCGcaUCGCg -3'
miRNA:   3'- -CCACCUaag-GUGUGGCaGaCGC--AGCG- -5'
26546 3' -53.8 NC_005357.1 + 24536 0.66 0.748902
Target:  5'- aGGUGGAUgaCCGCGUgGUC-GCGcagCGCg -3'
miRNA:   3'- -CCACCUAa-GGUGUGgCAGaCGCa--GCG- -5'
26546 3' -53.8 NC_005357.1 + 25983 0.66 0.727577
Target:  5'- --cGGuUUCCuCGCCgGUCUGCGgCGUa -3'
miRNA:   3'- ccaCCuAAGGuGUGG-CAGACGCaGCG- -5'
26546 3' -53.8 NC_005357.1 + 18580 0.67 0.705858
Target:  5'- uGGUGGGUUUCGC-CUGcCUGCugGUCa- -3'
miRNA:   3'- -CCACCUAAGGUGuGGCaGACG--CAGcg -5'
26546 3' -53.8 NC_005357.1 + 34863 0.67 0.694881
Target:  5'- cGUGGAcgugUCCAaGCCGgugGCGcCGCg -3'
miRNA:   3'- cCACCUa---AGGUgUGGCagaCGCaGCG- -5'
26546 3' -53.8 NC_005357.1 + 19136 0.67 0.694881
Target:  5'- gGGUGuucggcccCCACACCGUCagccagauggaUGCGUUGUc -3'
miRNA:   3'- -CCACcuaa----GGUGUGGCAG-----------ACGCAGCG- -5'
26546 3' -53.8 NC_005357.1 + 5334 0.67 0.694881
Target:  5'- --cGGAUaCCACGCUGUCgaUGUCGUu -3'
miRNA:   3'- ccaCCUAaGGUGUGGCAGacGCAGCG- -5'
26546 3' -53.8 NC_005357.1 + 23401 0.67 0.694881
Target:  5'- cGGUGGAUaCCuugaugagcGCGCCGgUCagUGCGaCGCc -3'
miRNA:   3'- -CCACCUAaGG---------UGUGGC-AG--ACGCaGCG- -5'
26546 3' -53.8 NC_005357.1 + 14031 0.67 0.683841
Target:  5'- -cUGGcg-CCGCGCCGcCgGCGUCGa -3'
miRNA:   3'- ccACCuaaGGUGUGGCaGaCGCAGCg -5'
26546 3' -53.8 NC_005357.1 + 27839 0.67 0.683841
Target:  5'- cGGUGGcgccggCCGCGCCG-CUGCucaagaacguGUcCGCg -3'
miRNA:   3'- -CCACCuaa---GGUGUGGCaGACG----------CA-GCG- -5'
26546 3' -53.8 NC_005357.1 + 35231 0.67 0.672751
Target:  5'- cGUGGAcaUCGCGCUGUCccggcUGCGUCa- -3'
miRNA:   3'- cCACCUaaGGUGUGGCAG-----ACGCAGcg -5'
26546 3' -53.8 NC_005357.1 + 28084 0.68 0.661621
Target:  5'- aGGUGG---CCGCGgCGUCguauucCGUCGCg -3'
miRNA:   3'- -CCACCuaaGGUGUgGCAGac----GCAGCG- -5'
26546 3' -53.8 NC_005357.1 + 12457 0.68 0.661621
Target:  5'- --cGGcugcaUCCAgGCCGUCgUGCGcCGCg -3'
miRNA:   3'- ccaCCua---AGGUgUGGCAG-ACGCaGCG- -5'
26546 3' -53.8 NC_005357.1 + 34654 0.68 0.639286
Target:  5'- gGGUGGAcgCCggcgcagaucGCGCCGgugCUGCaaUCGCu -3'
miRNA:   3'- -CCACCUaaGG----------UGUGGCa--GACGc-AGCG- -5'
26546 3' -53.8 NC_005357.1 + 6652 0.68 0.605759
Target:  5'- --cGGAgugUCCGCGCUcaugGUCUGCGccaCGCc -3'
miRNA:   3'- ccaCCUa--AGGUGUGG----CAGACGCa--GCG- -5'
26546 3' -53.8 NC_005357.1 + 23953 0.69 0.583509
Target:  5'- cGGUGGAcgaaucggCCgACGCCGcCgGCGcCGCg -3'
miRNA:   3'- -CCACCUaa------GG-UGUGGCaGaCGCaGCG- -5'
26546 3' -53.8 NC_005357.1 + 15834 0.69 0.572441
Target:  5'- --aGGAcUCgaaCACGCCGUCcGUGUCGUg -3'
miRNA:   3'- ccaCCUaAG---GUGUGGCAGaCGCAGCG- -5'
26546 3' -53.8 NC_005357.1 + 18380 0.7 0.528757
Target:  5'- cGGcaUGGAaaCCGCAaucguCCGUC-GCGUCGCc -3'
miRNA:   3'- -CC--ACCUaaGGUGU-----GGCAGaCGCAGCG- -5'
26546 3' -53.8 NC_005357.1 + 19993 0.7 0.528757
Target:  5'- -cUGGAcgagUCCGcCGCCGUCaagGCGUgGCu -3'
miRNA:   3'- ccACCUa---AGGU-GUGGCAGa--CGCAgCG- -5'
26546 3' -53.8 NC_005357.1 + 26644 0.75 0.267715
Target:  5'- --aGGAccggcUCUAUGCCGUCgUGCGUCGCa -3'
miRNA:   3'- ccaCCUa----AGGUGUGGCAG-ACGCAGCG- -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.