miRNA display CGI


Results 1 - 15 of 15 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
3458 3' -48.8 NC_001604.1 + 17791 0.66 0.945545
Target:  5'- aCCguAAGGCcgugaagAAACCUGuAGGGUACUUUg -3'
miRNA:   3'- -GGguUUCUG-------UUUGGGU-UCCCAUGAGG- -5'
3458 3' -48.8 NC_001604.1 + 29257 0.66 0.940892
Target:  5'- aCCCAAGGAC-AGCUUggGaGaUGCUUCa -3'
miRNA:   3'- -GGGUUUCUGuUUGGGuuC-CcAUGAGG- -5'
3458 3' -48.8 NC_001604.1 + 39467 0.66 0.935429
Target:  5'- aCCCAAGGGCAGcacaaaguACCaCAAGaaaucgguaGGUgACUCUa -3'
miRNA:   3'- -GGGUUUCUGUU--------UGG-GUUC---------CCA-UGAGG- -5'
3458 3' -48.8 NC_001604.1 + 22224 0.67 0.923572
Target:  5'- uUCCGAAGAguuuACCCcacuGGGcgagACUCCa -3'
miRNA:   3'- -GGGUUUCUguu-UGGGuu--CCCa---UGAGG- -5'
3458 3' -48.8 NC_001604.1 + 17694 0.67 0.91047
Target:  5'- aCCCGuAAGA-AGGCUUggGcaGGUGCUCCa -3'
miRNA:   3'- -GGGU-UUCUgUUUGGGuuC--CCAUGAGG- -5'
3458 3' -48.8 NC_001604.1 + 23374 0.67 0.903457
Target:  5'- gCCAGAGAUucACCCAacugAGaGGUauACUCa -3'
miRNA:   3'- gGGUUUCUGuuUGGGU----UC-CCA--UGAGg -5'
3458 3' -48.8 NC_001604.1 + 7608 0.68 0.880609
Target:  5'- aCCCGAAGGUGAGCCagugugauuaCAuuuucucuugAGGGUugUCCu -3'
miRNA:   3'- -GGGUUUCUGUUUGG----------GU----------UCCCAugAGG- -5'
3458 3' -48.8 NC_001604.1 + 19233 0.68 0.87241
Target:  5'- uCCUuuAGGC-AACCCAAGGuGU--UCCa -3'
miRNA:   3'- -GGGuuUCUGuUUGGGUUCC-CAugAGG- -5'
3458 3' -48.8 NC_001604.1 + 1424 0.69 0.836894
Target:  5'- gCUGAGuGAUAGACUCAAGGucGCUCCu -3'
miRNA:   3'- gGGUUU-CUGUUUGGGUUCCcaUGAGG- -5'
3458 3' -48.8 NC_001604.1 + 36964 0.7 0.80768
Target:  5'- uCCCAgcGA-GAACCCAAGGGauaGCUUa -3'
miRNA:   3'- -GGGUuuCUgUUUGGGUUCCCa--UGAGg -5'
3458 3' -48.8 NC_001604.1 + 19373 0.7 0.80768
Target:  5'- aUCCuGAGGCAGACuCUAAGGGcuuacagcgAUUCCu -3'
miRNA:   3'- -GGGuUUCUGUUUG-GGUUCCCa--------UGAGG- -5'
3458 3' -48.8 NC_001604.1 + 15397 0.7 0.787148
Target:  5'- aCCAAGuAC--ACCgaUAAGGGUGCUCCu -3'
miRNA:   3'- gGGUUUcUGuuUGG--GUUCCCAUGAGG- -5'
3458 3' -48.8 NC_001604.1 + 34046 0.71 0.721623
Target:  5'- gCCUAAGGAgAAACgUAAGGaGUACUUg -3'
miRNA:   3'- -GGGUUUCUgUUUGgGUUCC-CAUGAGg -5'
3458 3' -48.8 NC_001604.1 + 171 1 0.015861
Target:  5'- aCCCAAAGACAAACCCAAGGGUcaUCCc -3'
miRNA:   3'- -GGGUUUCUGUUUGGGUUCCCAugAGG- -5'
3458 3' -48.8 NC_001604.1 + 39909 1 0.015861
Target:  5'- aCCCAAAGACAAACCCAAGGGUcaUCCc -3'
miRNA:   3'- -GGGUUUCUGUUUGGGUUCCCAugAGG- -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.