miRNA display CGI


Results 1 - 20 of 43 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
11976 3' -60.8 NC_003278.1 + 12562 1.11 0.000096
Target:  5'- gGCCAGAACCUGGCCGGCCAGGUGCUCa -3'
miRNA:   3'- -CGGUCUUGGACCGGCCGGUCCACGAG- -5'
11976 3' -60.8 NC_003278.1 + 13675 0.8 0.028768
Target:  5'- cGCCAGGGCUUcGG-CGGCCAGGcGCUCa -3'
miRNA:   3'- -CGGUCUUGGA-CCgGCCGGUCCaCGAG- -5'
11976 3' -60.8 NC_003278.1 + 21086 0.76 0.053272
Target:  5'- uGCCAGGACCaccgGGUuggCGGCCAGGccccacagcgcgaUGCUCa -3'
miRNA:   3'- -CGGUCUUGGa---CCG---GCCGGUCC-------------ACGAG- -5'
11976 3' -60.8 NC_003278.1 + 16860 0.76 0.056646
Target:  5'- aGCCAGu-CCggugcGGCCGGCC-GGUGUUCu -3'
miRNA:   3'- -CGGUCuuGGa----CCGGCCGGuCCACGAG- -5'
11976 3' -60.8 NC_003278.1 + 12625 0.75 0.061828
Target:  5'- aUgAGcACCUGGCCGGCCAGGUuCUg -3'
miRNA:   3'- cGgUCuUGGACCGGCCGGUCCAcGAg -5'
11976 3' -60.8 NC_003278.1 + 20234 0.75 0.067467
Target:  5'- gGCCAGAGCCUGGagaCGGUCAccaccgccacGGcccUGCUCg -3'
miRNA:   3'- -CGGUCUUGGACCg--GCCGGU----------CC---ACGAG- -5'
11976 3' -60.8 NC_003278.1 + 7895 0.75 0.067467
Target:  5'- gGCCAGGggggagggugggGCCgUGGUCGGCCAGGccgugGUUCg -3'
miRNA:   3'- -CGGUCU------------UGG-ACCGGCCGGUCCa----CGAG- -5'
11976 3' -60.8 NC_003278.1 + 13823 0.74 0.084782
Target:  5'- cCCGaauGACCUGGCgcuucacacgcucCGGCCAGGUGCUg -3'
miRNA:   3'- cGGUc--UUGGACCG-------------GCCGGUCCACGAg -5'
11976 3' -60.8 NC_003278.1 + 17862 0.74 0.085027
Target:  5'- gGCCAGcACCUGGgCGGUgCGGGUGUa- -3'
miRNA:   3'- -CGGUCuUGGACCgGCCG-GUCCACGag -5'
11976 3' -60.8 NC_003278.1 + 21464 0.73 0.087507
Target:  5'- cCCAGGGCCUcgGcGCCGGCCAGGccgGCcCg -3'
miRNA:   3'- cGGUCUUGGA--C-CGGCCGGUCCa--CGaG- -5'
11976 3' -60.8 NC_003278.1 + 14104 0.73 0.095366
Target:  5'- cGCCAG-GCCgUGGCgGGCCAGGaUGUcCg -3'
miRNA:   3'- -CGGUCuUGG-ACCGgCCGGUCC-ACGaG- -5'
11976 3' -60.8 NC_003278.1 + 21507 0.72 0.109966
Target:  5'- gGCCcuGGGCCaGGCCGGCCAuGGUGa-- -3'
miRNA:   3'- -CGGu-CUUGGaCCGGCCGGU-CCACgag -5'
11976 3' -60.8 NC_003278.1 + 6886 0.71 0.123128
Target:  5'- uGCCGGcuugcaccuGCCcgGGuuGGCCGGG-GCUCu -3'
miRNA:   3'- -CGGUCu--------UGGa-CCggCCGGUCCaCGAG- -5'
11976 3' -60.8 NC_003278.1 + 21302 0.71 0.130244
Target:  5'- uCCAGGGCCUGGUgaaCGGCC---UGCUCg -3'
miRNA:   3'- cGGUCUUGGACCG---GCCGGuccACGAG- -5'
11976 3' -60.8 NC_003278.1 + 31798 0.71 0.137739
Target:  5'- cCCGGGACa---CCGGCCAGGcGCUCg -3'
miRNA:   3'- cGGUCUUGgaccGGCCGGUCCaCGAG- -5'
11976 3' -60.8 NC_003278.1 + 1369 0.7 0.145629
Target:  5'- -aCAaAGCCUGGCCuuguGGCCAGG-GCUUu -3'
miRNA:   3'- cgGUcUUGGACCGG----CCGGUCCaCGAG- -5'
11976 3' -60.8 NC_003278.1 + 4593 0.7 0.162654
Target:  5'- cGCC-GAACUcaccaGCCGGCCAGGcccacuugaugUGCUCg -3'
miRNA:   3'- -CGGuCUUGGac---CGGCCGGUCC-----------ACGAG- -5'
11976 3' -60.8 NC_003278.1 + 21014 0.7 0.162654
Target:  5'- cGCUguGGGGCCUGGCCG-CCAacccGGUGgUCc -3'
miRNA:   3'- -CGG--UCUUGGACCGGCcGGU----CCACgAG- -5'
11976 3' -60.8 NC_003278.1 + 5140 0.69 0.171823
Target:  5'- cGCCAGuuccuugguGACCUuguccaacuGGCUGGCCAGuUGCUg -3'
miRNA:   3'- -CGGUC---------UUGGA---------CCGGCCGGUCcACGAg -5'
11976 3' -60.8 NC_003278.1 + 4531 0.69 0.191552
Target:  5'- ---uGGGCCUGGCCGGCUGGuGaGUUCg -3'
miRNA:   3'- cgguCUUGGACCGGCCGGUC-CaCGAG- -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.