miRNA display CGI


Results 1 - 20 of 25 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
6108 3' -48.4 NC_001826.1 + 8711 1.12 0.008043
Target:  5'- gGCUGACGACCGCCAGGAAAAAGAAACc -3'
miRNA:   3'- -CGACUGCUGGCGGUCCUUUUUCUUUG- -5'
6108 3' -48.4 NC_001826.1 + 102853 0.89 0.209714
Target:  5'- --aGGCGACCGCCAGGGGAAAGAc-- -3'
miRNA:   3'- cgaCUGCUGGCGGUCCUUUUUCUuug -5'
6108 3' -48.4 NC_001826.1 + 20806 0.82 0.457526
Target:  5'- uGCUcGACG-CUGCCAGGAGGGAGAAcuACa -3'
miRNA:   3'- -CGA-CUGCuGGCGGUCCUUUUUCUU--UG- -5'
6108 3' -48.4 NC_001826.1 + 102087 0.73 0.882587
Target:  5'- gGCUcccACGGCUGCCGGGGGuAAGGGAAUu -3'
miRNA:   3'- -CGAc--UGCUGGCGGUCCUU-UUUCUUUG- -5'
6108 3' -48.4 NC_001826.1 + 25992 0.72 0.928618
Target:  5'- cGCUGgcgaGCGGCUGCCuAGGAuc--GAAACa -3'
miRNA:   3'- -CGAC----UGCUGGCGG-UCCUuuuuCUUUG- -5'
6108 3' -48.4 NC_001826.1 + 80660 0.72 0.934104
Target:  5'- uGCUGAUGgggaaGgUGCUGGGggGGAGGAGCc -3'
miRNA:   3'- -CGACUGC-----UgGCGGUCCuuUUUCUUUG- -5'
6108 3' -48.4 NC_001826.1 + 87679 0.7 0.964969
Target:  5'- aGCUGguccACGGCaGCCAGGuuGGGGAGGg -3'
miRNA:   3'- -CGAC----UGCUGgCGGUCCuuUUUCUUUg -5'
6108 3' -48.4 NC_001826.1 + 28308 0.7 0.968351
Target:  5'- aGCUcgGGCGAggGCCGGGAAGgugGGGGAACc -3'
miRNA:   3'- -CGA--CUGCUggCGGUCCUUU---UUCUUUG- -5'
6108 3' -48.4 NC_001826.1 + 34284 0.7 0.971495
Target:  5'- aGCUG-CGACCcgaGUCaAGGAGAGGGGGAg -3'
miRNA:   3'- -CGACuGCUGG---CGG-UCCUUUUUCUUUg -5'
6108 3' -48.4 NC_001826.1 + 73241 0.68 0.991728
Target:  5'- uGUUGGCGGCCGaCCugauuAGGAGcaccAAGGAuaAGCa -3'
miRNA:   3'- -CGACUGCUGGC-GG-----UCCUU----UUUCU--UUG- -5'
6108 3' -48.4 NC_001826.1 + 63799 0.68 0.991728
Target:  5'- --aGGCGAgUG-CAGGAAGAAGAAAg -3'
miRNA:   3'- cgaCUGCUgGCgGUCCUUUUUCUUUg -5'
6108 3' -48.4 NC_001826.1 + 756 0.67 0.992846
Target:  5'- cCUGACaGCUGUCAGGGGuuacauGAGAGAa -3'
miRNA:   3'- cGACUGcUGGCGGUCCUUu-----UUCUUUg -5'
6108 3' -48.4 NC_001826.1 + 119027 0.67 0.99384
Target:  5'- gGCUGGacccccuCCGCCGGGGGugggggguAGggGCa -3'
miRNA:   3'- -CGACUgcu----GGCGGUCCUUuu------UCuuUG- -5'
6108 3' -48.4 NC_001826.1 + 28499 0.67 0.99384
Target:  5'- cGC-GGCGGCCGCCccggcGGGAcucgcagcuGGAAGggGu -3'
miRNA:   3'- -CGaCUGCUGGCGG-----UCCU---------UUUUCuuUg -5'
6108 3' -48.4 NC_001826.1 + 23936 0.67 0.99472
Target:  5'- cUUGugGGCUGUgAGGAcaaccuGGAGggGCu -3'
miRNA:   3'- cGACugCUGGCGgUCCUu-----UUUCuuUG- -5'
6108 3' -48.4 NC_001826.1 + 103130 0.67 0.996176
Target:  5'- uGUUGugGGgUGCCGGGGAGcuuGGGuuCg -3'
miRNA:   3'- -CGACugCUgGCGGUCCUUUu--UCUuuG- -5'
6108 3' -48.4 NC_001826.1 + 82828 0.66 0.996542
Target:  5'- aGCUGAUGGCCGgCCAcagccauGAAGCu -3'
miRNA:   3'- -CGACUGCUGGC-GGUccuuuuuCUUUG- -5'
6108 3' -48.4 NC_001826.1 + 889 0.66 0.996769
Target:  5'- cCUGACaGCUGUCAGGGu-GAGAuuGGCa -3'
miRNA:   3'- cGACUGcUGGCGGUCCUuuUUCU--UUG- -5'
6108 3' -48.4 NC_001826.1 + 118236 0.66 0.996769
Target:  5'- gGCUGAgaGCCagGCgaGGGGAGAGGggGCu -3'
miRNA:   3'- -CGACUgcUGG--CGg-UCCUUUUUCuuUG- -5'
6108 3' -48.4 NC_001826.1 + 118871 0.66 0.99773
Target:  5'- gGCU--CGACCcCCcaggGGGGAAGAGggGCu -3'
miRNA:   3'- -CGAcuGCUGGcGG----UCCUUUUUCuuUG- -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.