miRNA display CGI


Results 1 - 20 of 187 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
19001 3' -63.1 NC_004684.1 + 1181 0.66 0.412848
Target:  5'- cCGGGUC-GCgGCCuggucaccgaucacgUCCAGCGCcgCCaGCCa -3'
miRNA:   3'- -GCCUAGuCG-CGG---------------AGGUCGCG--GGcCGG- -5'
19001 3' -63.1 NC_004684.1 + 16456 0.66 0.409361
Target:  5'- cCGGGuguacUCGGcCGCCagcuugucggCCAGCGCCa-GCCg -3'
miRNA:   3'- -GCCU-----AGUC-GCGGa---------GGUCGCGGgcCGG- -5'
19001 3' -63.1 NC_004684.1 + 59611 0.66 0.409361
Target:  5'- aGGAccUguGCGCaggCCuacgacGCGCCCGGUg -3'
miRNA:   3'- gCCU--AguCGCGga-GGu-----CGCGGGCCGg -5'
19001 3' -63.1 NC_004684.1 + 36832 0.66 0.409361
Target:  5'- gCGGcGUCAGCGCCgggaCGGCGaacaGGUCg -3'
miRNA:   3'- -GCC-UAGUCGCGGag--GUCGCggg-CCGG- -5'
19001 3' -63.1 NC_004684.1 + 7671 0.66 0.409361
Target:  5'- cCGGGUugccgcgcacCAGcCGCa-CCAGCGCCacccggGGCCg -3'
miRNA:   3'- -GCCUA----------GUC-GCGgaGGUCGCGGg-----CCGG- -5'
19001 3' -63.1 NC_004684.1 + 41187 0.66 0.407624
Target:  5'- aCGGGUCGGUGCUgaucaaaggcgaCCAGaCGCCagCGGUg -3'
miRNA:   3'- -GCCUAGUCGCGGa-----------GGUC-GCGG--GCCGg -5'
19001 3' -63.1 NC_004684.1 + 56419 0.66 0.407624
Target:  5'- cCGGAcaugaacucgcgCAGCGCgguCUCCAcgucccggcGCGCCagGGCCg -3'
miRNA:   3'- -GCCUa-----------GUCGCG---GAGGU---------CGCGGg-CCGG- -5'
19001 3' -63.1 NC_004684.1 + 25834 0.66 0.400725
Target:  5'- aCGGcAUCGGCGg--CCAGaUGCUCGGCg -3'
miRNA:   3'- -GCC-UAGUCGCggaGGUC-GCGGGCCGg -5'
19001 3' -63.1 NC_004684.1 + 19706 0.66 0.400725
Target:  5'- aCGGuGUCgccgAGCGUCaccgCCAGCaCCuCGGCCg -3'
miRNA:   3'- -GCC-UAG----UCGCGGa---GGUCGcGG-GCCGG- -5'
19001 3' -63.1 NC_004684.1 + 66885 0.66 0.400725
Target:  5'- cCGGuggcgaccuUCGGCgcgGCCUUCGGCGCggccuuggCGGCCa -3'
miRNA:   3'- -GCCu--------AGUCG---CGGAGGUCGCGg-------GCCGG- -5'
19001 3' -63.1 NC_004684.1 + 40425 0.66 0.400725
Target:  5'- ----cCAGCGaCCUgcCCAGCGCCgaGGUCg -3'
miRNA:   3'- gccuaGUCGC-GGA--GGUCGCGGg-CCGG- -5'
19001 3' -63.1 NC_004684.1 + 27031 0.66 0.399868
Target:  5'- cCGGGUgcCGGUggcauuguguccaGCCucaucUCCAGCGCCgGGUCc -3'
miRNA:   3'- -GCCUA--GUCG-------------CGG-----AGGUCGCGGgCCGG- -5'
19001 3' -63.1 NC_004684.1 + 37687 0.66 0.3956
Target:  5'- uGGAUUAccuGgGCCUguucguacgcaaccaCCuuGCGCCCGGCg -3'
miRNA:   3'- gCCUAGU---CgCGGA---------------GGu-CGCGGGCCGg -5'
19001 3' -63.1 NC_004684.1 + 49035 0.66 0.392207
Target:  5'- cCGGcgCAgGCuCCUCCuccucGGCagGCUCGGCCa -3'
miRNA:   3'- -GCCuaGU-CGcGGAGG-----UCG--CGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 24020 0.66 0.392207
Target:  5'- aCGuGAUCGGUuCCggcaaGGUGCCCGGCg -3'
miRNA:   3'- -GC-CUAGUCGcGGagg--UCGCGGGCCGg -5'
19001 3' -63.1 NC_004684.1 + 18370 0.66 0.392207
Target:  5'- cCGG-UCGGUGCCagCAgGCGgCCGGgCg -3'
miRNA:   3'- -GCCuAGUCGCGGagGU-CGCgGGCCgG- -5'
19001 3' -63.1 NC_004684.1 + 45212 0.66 0.392207
Target:  5'- gCGG--CAGCGCgUCCaugcGGCGCuuGGUg -3'
miRNA:   3'- -GCCuaGUCGCGgAGG----UCGCGggCCGg -5'
19001 3' -63.1 NC_004684.1 + 37743 0.66 0.392207
Target:  5'- cCGGGUCgaugccugaccgGGCgGCCauggCCAGCGCaccgaCGGCg -3'
miRNA:   3'- -GCCUAG------------UCG-CGGa---GGUCGCGg----GCCGg -5'
19001 3' -63.1 NC_004684.1 + 45242 0.66 0.392207
Target:  5'- -uGGUCAG-GCCcggcagCCAGCGCUggucgCGGCCc -3'
miRNA:   3'- gcCUAGUCgCGGa-----GGUCGCGG-----GCCGG- -5'
19001 3' -63.1 NC_004684.1 + 48975 0.66 0.392207
Target:  5'- cCGGggCgGGCGCg-UCGGUGCCCugcuGGCCg -3'
miRNA:   3'- -GCCuaG-UCGCGgaGGUCGCGGG----CCGG- -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.