miRNA display CGI


Results 1 - 20 of 37 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
30867 3' -59.9 NC_006552.1 + 30992 0.66 0.558674
Target:  5'- aCAuuUCCUgGCUCGGC-GUCAGUUCaaugGGCc -3'
miRNA:   3'- gGU--AGGG-CGAGCCGcCGGUCAAG----CCG- -5'
30867 3' -59.9 NC_006552.1 + 32683 0.66 0.558674
Target:  5'- aUCA-CCUGCUUGGUgucgucgccGGCCGGcgCGGg -3'
miRNA:   3'- -GGUaGGGCGAGCCG---------CCGGUCaaGCCg -5'
30867 3' -59.9 NC_006552.1 + 34808 0.66 0.53831
Target:  5'- aCCAcUUCGCcuUCGGaCGGCCGaggCGGCg -3'
miRNA:   3'- -GGUaGGGCG--AGCC-GCCGGUcaaGCCG- -5'
30867 3' -59.9 NC_006552.1 + 20974 0.66 0.53831
Target:  5'- gCCGUCauGCUCGGCGcGuCCGGgauguugaUCGGa -3'
miRNA:   3'- -GGUAGggCGAGCCGC-C-GGUCa-------AGCCg -5'
30867 3' -59.9 NC_006552.1 + 36190 0.66 0.53831
Target:  5'- gCCGgcaCCCGCgUCGGCuGCgAcGUUgGGCu -3'
miRNA:   3'- -GGUa--GGGCG-AGCCGcCGgU-CAAgCCG- -5'
30867 3' -59.9 NC_006552.1 + 4268 0.66 0.518206
Target:  5'- --uUCCCGCuUUGGCGG-UGGUUgCGGUa -3'
miRNA:   3'- gguAGGGCG-AGCCGCCgGUCAA-GCCG- -5'
30867 3' -59.9 NC_006552.1 + 53561 0.67 0.512232
Target:  5'- gCAUCUacuuCGCUUugcaGGgagucgauguggcgcCGGCCAGUUCGGUg -3'
miRNA:   3'- gGUAGG----GCGAG----CC---------------GCCGGUCAAGCCG- -5'
30867 3' -59.9 NC_006552.1 + 13846 0.67 0.508266
Target:  5'- uUCAUCaggCGC-CGGUacugGGCCAGguaaUCGGCc -3'
miRNA:   3'- -GGUAGg--GCGaGCCG----CCGGUCa---AGCCG- -5'
30867 3' -59.9 NC_006552.1 + 28005 0.67 0.498407
Target:  5'- aCCAUgaUGUUCuGCGGCgAGUaCGGCg -3'
miRNA:   3'- -GGUAggGCGAGcCGCCGgUCAaGCCG- -5'
30867 3' -59.9 NC_006552.1 + 31880 0.67 0.498407
Target:  5'- gUAagCCGUgaaagCGGCuucGGCCAGcgCGGCg -3'
miRNA:   3'- gGUagGGCGa----GCCG---CCGGUCaaGCCG- -5'
30867 3' -59.9 NC_006552.1 + 15455 0.67 0.498407
Target:  5'- -gAUUCCGCUgcCGGCGccagcgauacaGCCGGUUgugCGGCu -3'
miRNA:   3'- ggUAGGGCGA--GCCGC-----------CGGUCAA---GCCG- -5'
30867 3' -59.9 NC_006552.1 + 35906 0.67 0.488634
Target:  5'- cUCAUCCCGCa-GGCGuuguagcuuGCCuGcgCGGCc -3'
miRNA:   3'- -GGUAGGGCGagCCGC---------CGGuCaaGCCG- -5'
30867 3' -59.9 NC_006552.1 + 28907 0.67 0.488634
Target:  5'- --uUCCUGgaCGGUgcucuggaauccGGCCGGcUCGGCa -3'
miRNA:   3'- gguAGGGCgaGCCG------------CCGGUCaAGCCG- -5'
30867 3' -59.9 NC_006552.1 + 4941 0.67 0.478953
Target:  5'- -uGUCgCGCUgcGCGGUCAGcUCGGCc -3'
miRNA:   3'- ggUAGgGCGAgcCGCCGGUCaAGCCG- -5'
30867 3' -59.9 NC_006552.1 + 44832 0.67 0.478953
Target:  5'- aCggCCUGCaaugCGGCGGUCAGcacUGGCu -3'
miRNA:   3'- gGuaGGGCGa---GCCGCCGGUCaa-GCCG- -5'
30867 3' -59.9 NC_006552.1 + 59753 0.67 0.478953
Target:  5'- aCGaaCUGCUcgaguaCGGCGGCCGcaUCGGCu -3'
miRNA:   3'- gGUagGGCGA------GCCGCCGGUcaAGCCG- -5'
30867 3' -59.9 NC_006552.1 + 62294 0.67 0.469366
Target:  5'- uCCGUCCCGCggacaccgUCGGCgcgacGGCaAGUUCGuCg -3'
miRNA:   3'- -GGUAGGGCG--------AGCCG-----CCGgUCAAGCcG- -5'
30867 3' -59.9 NC_006552.1 + 20809 0.67 0.458936
Target:  5'- -gAUCCCGCUcgcgucCGGCGGCguGgcgUCgaacguaGGCa -3'
miRNA:   3'- ggUAGGGCGA------GCCGCCGguCa--AG-------CCG- -5'
30867 3' -59.9 NC_006552.1 + 5107 0.68 0.441216
Target:  5'- cCCAaCUCGCg-GGCGGUCAuugCGGCa -3'
miRNA:   3'- -GGUaGGGCGagCCGCCGGUcaaGCCG- -5'
30867 3' -59.9 NC_006552.1 + 64432 0.68 0.414048
Target:  5'- aUCAUCgCCGCccUCGGCcuGGCCguGGUggGGCu -3'
miRNA:   3'- -GGUAG-GGCG--AGCCG--CCGG--UCAagCCG- -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.