miRNA display CGI


Results 1 - 20 of 51 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
18801 3' -55.8 NC_004683.1 + 20385 0.66 0.677579
Target:  5'- --aCGcGCUGCCGccgucGCCgCCccGGCCg -3'
miRNA:   3'- uaaGC-CGACGGUuu---UGGgGGuaCCGG- -5'
18801 3' -55.8 NC_004683.1 + 9262 0.66 0.676478
Target:  5'- -aUCGGCUuguacucGCCGu--CgaCCAUGGCCa -3'
miRNA:   3'- uaAGCCGA-------CGGUuuuGggGGUACCGG- -5'
18801 3' -55.8 NC_004683.1 + 7403 0.66 0.667652
Target:  5'- gAUUCGGCgGCCGGGcgcGCUgCCAcauuccacaucgacgGGCCg -3'
miRNA:   3'- -UAAGCCGaCGGUUU---UGGgGGUa--------------CCGG- -5'
18801 3' -55.8 NC_004683.1 + 25450 0.66 0.666547
Target:  5'- --cCGGCUGUucguCAGuACCUCUacgugGUGGCCa -3'
miRNA:   3'- uaaGCCGACG----GUUuUGGGGG-----UACCGG- -5'
18801 3' -55.8 NC_004683.1 + 933 0.66 0.666547
Target:  5'- -aUUGGUgggGCCGu--CCUCCAgccgcuUGGCCa -3'
miRNA:   3'- uaAGCCGa--CGGUuuuGGGGGU------ACCGG- -5'
18801 3' -55.8 NC_004683.1 + 11526 0.66 0.633295
Target:  5'- cGUUCGGCgccgUGCUGGAugCCCUGgcaucGGUCa -3'
miRNA:   3'- -UAAGCCG----ACGGUUUugGGGGUa----CCGG- -5'
18801 3' -55.8 NC_004683.1 + 15052 0.66 0.633295
Target:  5'- gGUUCGGCaugcagGCCGGcaaggcGAUCCUCAcccaGGCCa -3'
miRNA:   3'- -UAAGCCGa-----CGGUU------UUGGGGGUa---CCGG- -5'
18801 3' -55.8 NC_004683.1 + 26342 0.67 0.622196
Target:  5'- -gUCGGCgGUgCGAGGCCgCguUGGCCc -3'
miRNA:   3'- uaAGCCGaCG-GUUUUGGgGguACCGG- -5'
18801 3' -55.8 NC_004683.1 + 19200 0.67 0.612213
Target:  5'- --cCGGC-GCCGAugugaaguacgaauCCCUgGUGGCCg -3'
miRNA:   3'- uaaGCCGaCGGUUuu------------GGGGgUACCGG- -5'
18801 3' -55.8 NC_004683.1 + 31079 0.67 0.611105
Target:  5'- --cCGcGCgcaguaGUCAucACCCCCGUGGCg -3'
miRNA:   3'- uaaGC-CGa-----CGGUuuUGGGGGUACCGg -5'
18801 3' -55.8 NC_004683.1 + 30784 0.67 0.611105
Target:  5'- -gUCGGCUGCgCAc-GCCgCCCGgaacGCCg -3'
miRNA:   3'- uaAGCCGACG-GUuuUGG-GGGUac--CGG- -5'
18801 3' -55.8 NC_004683.1 + 6650 0.67 0.611105
Target:  5'- ---aGGCUGCCAucGACgCCgugcUGGCCg -3'
miRNA:   3'- uaagCCGACGGUu-UUGgGGgu--ACCGG- -5'
18801 3' -55.8 NC_004683.1 + 55004 0.67 0.611105
Target:  5'- -gUCGGCgGCCucGAUCCCgCAUucGGCg -3'
miRNA:   3'- uaAGCCGaCGGuuUUGGGG-GUA--CCGg -5'
18801 3' -55.8 NC_004683.1 + 20435 0.67 0.611105
Target:  5'- --cCGGCggugcagggGCCAccGCgCCgAUGGCCg -3'
miRNA:   3'- uaaGCCGa--------CGGUuuUGgGGgUACCGG- -5'
18801 3' -55.8 NC_004683.1 + 8751 0.67 0.600032
Target:  5'- cGUUCGGUgagGgCAAcGGCCCCuCGUcgcGGCCg -3'
miRNA:   3'- -UAAGCCGa--CgGUU-UUGGGG-GUA---CCGG- -5'
18801 3' -55.8 NC_004683.1 + 13210 0.67 0.600032
Target:  5'- -aUCGGCaccggucccGCCGAuGCCCCuCcgGGCa -3'
miRNA:   3'- uaAGCCGa--------CGGUUuUGGGG-GuaCCGg -5'
18801 3' -55.8 NC_004683.1 + 51768 0.67 0.598926
Target:  5'- -cUCGGCUGCCucGAACCgcggcgugcgguuUCUGaccUGGCCa -3'
miRNA:   3'- uaAGCCGACGGu-UUUGG-------------GGGU---ACCGG- -5'
18801 3' -55.8 NC_004683.1 + 8096 0.67 0.588988
Target:  5'- --aCGGC-GCCGAcGACCCCgA-GGCUg -3'
miRNA:   3'- uaaGCCGaCGGUU-UUGGGGgUaCCGG- -5'
18801 3' -55.8 NC_004683.1 + 1461 0.67 0.588988
Target:  5'- --cCGGCUugucgugccaGCCGAGGCgCUCGcGGCCg -3'
miRNA:   3'- uaaGCCGA----------CGGUUUUGgGGGUaCCGG- -5'
18801 3' -55.8 NC_004683.1 + 18992 0.67 0.57798
Target:  5'- --aCGGUUGCaCGacggugcgcacGAACUCCCG-GGCCg -3'
miRNA:   3'- uaaGCCGACG-GU-----------UUUGGGGGUaCCGG- -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.