miRNA display CGI


Results 1 - 20 of 69 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
12999 3' -64.4 NC_003387.1 + 324 0.69 0.18934
Target:  5'- aGCCCGGCgacacgcacgccaAGAUCCGCGuGCgCGcGGUCGa -3'
miRNA:   3'- -CGGGCCGg------------UCUGGGCGC-CG-GC-CUAGU- -5'
12999 3' -64.4 NC_003387.1 + 5805 0.67 0.233491
Target:  5'- uGCCCGGCuCAaGCgUGCGGCCGug-CAc -3'
miRNA:   3'- -CGGGCCG-GUcUGgGCGCCGGCcuaGU- -5'
12999 3' -64.4 NC_003387.1 + 6851 0.66 0.29282
Target:  5'- cGCUCGGCCGcGGCgCGCaGCCgcagcagcucgcgcaGGAUCu -3'
miRNA:   3'- -CGGGCCGGU-CUGgGCGcCGG---------------CCUAGu -5'
12999 3' -64.4 NC_003387.1 + 7049 0.67 0.263055
Target:  5'- gGCCCGGCCgcucgcccugaccGGACaCCuucggcgccagGCGGCC-GAUCu -3'
miRNA:   3'- -CGGGCCGG-------------UCUG-GG-----------CGCCGGcCUAGu -5'
12999 3' -64.4 NC_003387.1 + 7383 0.74 0.070239
Target:  5'- cGCCUGaGCUgcacGGAUcggCCGCGGCCGGGUCu -3'
miRNA:   3'- -CGGGC-CGG----UCUG---GGCGCCGGCCUAGu -5'
12999 3' -64.4 NC_003387.1 + 7765 0.66 0.276629
Target:  5'- uCgCGGCCuGAgCCGCGGCCuGAg-- -3'
miRNA:   3'- cGgGCCGGuCUgGGCGCCGGcCUagu -5'
12999 3' -64.4 NC_003387.1 + 7813 0.66 0.304019
Target:  5'- aGCCCGGCgacgcgauaCGGauaugcgcGCCCgGCGGCUGcGUCAg -3'
miRNA:   3'- -CGGGCCG---------GUC--------UGGG-CGCCGGCcUAGU- -5'
12999 3' -64.4 NC_003387.1 + 8060 0.68 0.206254
Target:  5'- aGCaCCGG-CAGcCCCuCGGCCaGGAUCGc -3'
miRNA:   3'- -CG-GGCCgGUCuGGGcGCCGG-CCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 8071 0.7 0.148022
Target:  5'- gGCCCGcGCUA-ACCCGCuGCCGG-UCGg -3'
miRNA:   3'- -CGGGC-CGGUcUGGGCGcCGGCCuAGU- -5'
12999 3' -64.4 NC_003387.1 + 9748 0.68 0.227811
Target:  5'- aGgUCGGCCAGGCUcaCGCGcauGCCGGggCGg -3'
miRNA:   3'- -CgGGCCGGUCUGG--GCGC---CGGCCuaGU- -5'
12999 3' -64.4 NC_003387.1 + 9998 0.68 0.201148
Target:  5'- aCCCGacCCGuuCCCGCGGCCGGG-CGa -3'
miRNA:   3'- cGGGCc-GGUcuGGGCGCCGGCCUaGU- -5'
12999 3' -64.4 NC_003387.1 + 10517 0.67 0.251245
Target:  5'- cGCUCGGCUcGGCgaUGCgGGCCGGGUUc -3'
miRNA:   3'- -CGGGCCGGuCUGg-GCG-CCGGCCUAGu -5'
12999 3' -64.4 NC_003387.1 + 11015 0.75 0.066524
Target:  5'- cCCCGGCCGccuucgucGGCgCCGCGacGCCGGGUCGg -3'
miRNA:   3'- cGGGCCGGU--------CUG-GGCGC--CGGCCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 11821 0.66 0.296981
Target:  5'- cGCCCGaGCCGcGA-UCGCGGCCuuGAUUAg -3'
miRNA:   3'- -CGGGC-CGGU-CUgGGCGCCGGc-CUAGU- -5'
12999 3' -64.4 NC_003387.1 + 12275 0.84 0.013359
Target:  5'- cGCCUGGC--GACCgGCGGCCGGAUCAg -3'
miRNA:   3'- -CGGGCCGguCUGGgCGCCGGCCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 12346 0.69 0.172772
Target:  5'- cGCCgacgucgaGGCCcuuGGCCC-CGGCCGcGAUCAc -3'
miRNA:   3'- -CGGg-------CCGGu--CUGGGcGCCGGC-CUAGU- -5'
12999 3' -64.4 NC_003387.1 + 13162 0.68 0.196152
Target:  5'- gGCCgucgaGGUCAGGCUCGCGuGCCauGAUCAg -3'
miRNA:   3'- -CGGg----CCGGUCUGGGCGC-CGGc-CUAGU- -5'
12999 3' -64.4 NC_003387.1 + 13308 0.68 0.206254
Target:  5'- cGCCCGGUCAccucGACCCacucGCGcGCCaGGcgCAc -3'
miRNA:   3'- -CGGGCCGGU----CUGGG----CGC-CGG-CCuaGU- -5'
12999 3' -64.4 NC_003387.1 + 14168 0.68 0.196152
Target:  5'- cGCCgGGCCGGG-CCGCGGgCGuGAgggCGu -3'
miRNA:   3'- -CGGgCCGGUCUgGGCGCCgGC-CUa--GU- -5'
12999 3' -64.4 NC_003387.1 + 15702 0.76 0.056483
Target:  5'- uGCCCGGCCAuauccauugcGuacacgcggaACCCGC-GCCGGAUCAg -3'
miRNA:   3'- -CGGGCCGGU----------C----------UGGGCGcCGGCCUAGU- -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.