miRNA display CGI


Results 1 - 20 of 33 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
25730 3' -57.2 NC_005337.1 + 23079 0.66 0.840754
Target:  5'- gGCGGCCgugcccGGCauCGUGcgCGCgGUGGu -3'
miRNA:   3'- -CGCCGGaa----CCG--GCACuaGUGgCACUu -5'
25730 3' -57.2 NC_005337.1 + 98096 0.66 0.840754
Target:  5'- cGUGGUCUgcgacgacgugGGCCGguc-CACCGUGAc -3'
miRNA:   3'- -CGCCGGAa----------CCGGCacuaGUGGCACUu -5'
25730 3' -57.2 NC_005337.1 + 76960 0.66 0.840754
Target:  5'- cGCGGCgCUUGGCCGcgcGGUU-CCGaGAGc -3'
miRNA:   3'- -CGCCG-GAACCGGCa--CUAGuGGCaCUU- -5'
25730 3' -57.2 NC_005337.1 + 53644 0.66 0.832462
Target:  5'- -aGGag-UGcGCCGUGAUCGCCGcGAu -3'
miRNA:   3'- cgCCggaAC-CGGCACUAGUGGCaCUu -5'
25730 3' -57.2 NC_005337.1 + 19616 0.66 0.832462
Target:  5'- gGCGGCCUcgaGGCCcgcguUCACCGgggGGAu -3'
miRNA:   3'- -CGCCGGAa--CCGGcacu-AGUGGCa--CUU- -5'
25730 3' -57.2 NC_005337.1 + 61129 0.66 0.832462
Target:  5'- cCGGCaugaUGGCCGUGuacaccuCCGUGAGu -3'
miRNA:   3'- cGCCGga--ACCGGCACuagu---GGCACUU- -5'
25730 3' -57.2 NC_005337.1 + 132566 0.66 0.815332
Target:  5'- uCGGCacggUGGCCGUG-UCGCUGUu-- -3'
miRNA:   3'- cGCCGga--ACCGGCACuAGUGGCAcuu -5'
25730 3' -57.2 NC_005337.1 + 25871 0.66 0.80651
Target:  5'- aCGGagUUGGCCGUGAUCuuguaCGUGu- -3'
miRNA:   3'- cGCCggAACCGGCACUAGug---GCACuu -5'
25730 3' -57.2 NC_005337.1 + 99586 0.66 0.80651
Target:  5'- uGCGGCgCUUcGGgCGgGAcugCGCCGUGAGc -3'
miRNA:   3'- -CGCCG-GAA-CCgGCaCUa--GUGGCACUU- -5'
25730 3' -57.2 NC_005337.1 + 82093 0.66 0.80651
Target:  5'- cGCGGUC--GGCCGUcuGcgCGCCGUcGAAg -3'
miRNA:   3'- -CGCCGGaaCCGGCA--CuaGUGGCA-CUU- -5'
25730 3' -57.2 NC_005337.1 + 97797 0.66 0.80651
Target:  5'- cGCGGCCa-GGCCGUGcggCAggUgGUGAAg -3'
miRNA:   3'- -CGCCGGaaCCGGCACua-GU--GgCACUU- -5'
25730 3' -57.2 NC_005337.1 + 130742 0.66 0.797528
Target:  5'- cGUGGCCgcugGGUccgaCGUGugCACCGUGGAc -3'
miRNA:   3'- -CGCCGGaa--CCG----GCACuaGUGGCACUU- -5'
25730 3' -57.2 NC_005337.1 + 8386 0.67 0.788394
Target:  5'- aUGGCCa-GGCUGUGcagCACCGUGu- -3'
miRNA:   3'- cGCCGGaaCCGGCACua-GUGGCACuu -5'
25730 3' -57.2 NC_005337.1 + 77988 0.67 0.788394
Target:  5'- aGCGGCCgcaugacGGCgaaCGUGAUCG-CGUGGu -3'
miRNA:   3'- -CGCCGGaa-----CCG---GCACUAGUgGCACUu -5'
25730 3' -57.2 NC_005337.1 + 110219 0.67 0.787472
Target:  5'- cGCGGCCgcGGCCGc-GUCGCCcgagcacagcugcGUGAGc -3'
miRNA:   3'- -CGCCGGaaCCGGCacUAGUGG-------------CACUU- -5'
25730 3' -57.2 NC_005337.1 + 35333 0.67 0.779117
Target:  5'- cGgGGCCUgGGCCGUGuu--CgGUGAGu -3'
miRNA:   3'- -CgCCGGAaCCGGCACuaguGgCACUU- -5'
25730 3' -57.2 NC_005337.1 + 33458 0.67 0.769707
Target:  5'- uGCaGCgCUUGGCCGUGGUCuucaCGUa-- -3'
miRNA:   3'- -CGcCG-GAACCGGCACUAGug--GCAcuu -5'
25730 3' -57.2 NC_005337.1 + 64482 0.67 0.760173
Target:  5'- aGCuGGUCUUgugcucGGCCGUGGaccgcgUCACgGUGAAg -3'
miRNA:   3'- -CG-CCGGAA------CCGGCACU------AGUGgCACUU- -5'
25730 3' -57.2 NC_005337.1 + 115107 0.67 0.750524
Target:  5'- aGCGGguCCaugaucgUGGCCGaGAUCuCCGUGAGc -3'
miRNA:   3'- -CGCC--GGa------ACCGGCaCUAGuGGCACUU- -5'
25730 3' -57.2 NC_005337.1 + 101522 0.68 0.740768
Target:  5'- cGCGGCUggaGGCCGUGGa---CGUGAc -3'
miRNA:   3'- -CGCCGGaa-CCGGCACUagugGCACUu -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.