miRNA display CGI


Results 1 - 20 of 48 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
18554 3' -53 NC_004682.1 + 49338 0.66 0.84706
Target:  5'- -gGUCUucgGCGAAG-UCUGAAGCUCgaaGUa -3'
miRNA:   3'- cgCAGG---UGCUUCaAGGCUUCGAGg--CG- -5'
18554 3' -53 NC_004682.1 + 43458 0.66 0.829266
Target:  5'- uGCGUCgaaguGCGAgaaggcuacGGggCCGcaGAGUUCCGCg -3'
miRNA:   3'- -CGCAGg----UGCU---------UCaaGGC--UUCGAGGCG- -5'
18554 3' -53 NC_004682.1 + 42244 0.67 0.785268
Target:  5'- aGCGUCuuCAUGAucacGGggCCGggGUagccagcgcggugcaUCCGCa -3'
miRNA:   3'- -CGCAG--GUGCU----UCaaGGCuuCG---------------AGGCG- -5'
18554 3' -53 NC_004682.1 + 41409 0.7 0.619471
Target:  5'- uGCGUCggugaccgaGCGAAGcUCCGggGUgaucUCCGUc -3'
miRNA:   3'- -CGCAGg--------UGCUUCaAGGCuuCG----AGGCG- -5'
18554 3' -53 NC_004682.1 + 41211 0.67 0.791225
Target:  5'- cGCGgaUCUGCauGGUgucUCCGAugaacucaAGCUCCGCg -3'
miRNA:   3'- -CGC--AGGUGcuUCA---AGGCU--------UCGAGGCG- -5'
18554 3' -53 NC_004682.1 + 41193 1.15 0.00073
Target:  5'- gGCGUCCACGAAGUUCCGAAGCUCCGCa -3'
miRNA:   3'- -CGCAGGUGCUUCAAGGCUUCGAGGCG- -5'
18554 3' -53 NC_004682.1 + 40002 0.67 0.781264
Target:  5'- aGCGUCUgcGCGAGG--CCGAGGCccUCgGUg -3'
miRNA:   3'- -CGCAGG--UGCUUCaaGGCUUCG--AGgCG- -5'
18554 3' -53 NC_004682.1 + 39147 0.73 0.429364
Target:  5'- --cUCCGCGAAGUagUCCu-GGCUCUGCu -3'
miRNA:   3'- cgcAGGUGCUUCA--AGGcuUCGAGGCG- -5'
18554 3' -53 NC_004682.1 + 37899 0.71 0.542544
Target:  5'- aUGUCCGCGAAGUUCUcucGCgggugCCGUa -3'
miRNA:   3'- cGCAGGUGCUUCAAGGcuuCGa----GGCG- -5'
18554 3' -53 NC_004682.1 + 36472 0.72 0.521085
Target:  5'- cGCGUCCGCGuacgccucGUUCCGGccucgcAGCgccuccagagCCGCa -3'
miRNA:   3'- -CGCAGGUGCuu------CAAGGCU------UCGa---------GGCG- -5'
18554 3' -53 NC_004682.1 + 33246 0.66 0.838273
Target:  5'- cGUGUCCGCGAgcguGGUgaacgCUGGcgugAGCgCCGUg -3'
miRNA:   3'- -CGCAGGUGCU----UCAa----GGCU----UCGaGGCG- -5'
18554 3' -53 NC_004682.1 + 32314 0.71 0.553384
Target:  5'- gGUGUCCGCGAGcgaggCCaucuGGCUCUGCa -3'
miRNA:   3'- -CGCAGGUGCUUcaa--GGcu--UCGAGGCG- -5'
18554 3' -53 NC_004682.1 + 29913 0.67 0.771147
Target:  5'- cGCGccgaUCCgGCGcAGUUCCuGGAuaccugcuGCUCCGCg -3'
miRNA:   3'- -CGC----AGG-UGCuUCAAGG-CUU--------CGAGGCG- -5'
18554 3' -53 NC_004682.1 + 29260 0.68 0.71212
Target:  5'- gGCGgCgAUGAAGUcggcaucggccucgcUCUGGAGgUCCGCa -3'
miRNA:   3'- -CGCaGgUGCUUCA---------------AGGCUUCgAGGCG- -5'
18554 3' -53 NC_004682.1 + 29083 0.7 0.612811
Target:  5'- aGCGUCCugccgggagaugucgGCGggGUcggcUUCGA-GCUUCGCc -3'
miRNA:   3'- -CGCAGG---------------UGCuuCA----AGGCUuCGAGGCG- -5'
18554 3' -53 NC_004682.1 + 27391 0.69 0.690322
Target:  5'- gGCGUCCuCGGugaaguccuggccguAGUUCC-AGGCcCCGCc -3'
miRNA:   3'- -CGCAGGuGCU---------------UCAAGGcUUCGaGGCG- -5'
18554 3' -53 NC_004682.1 + 26939 0.77 0.25074
Target:  5'- cGCGUCCugGggGUguggCCGguGC-CCGUc -3'
miRNA:   3'- -CGCAGGugCuuCAa---GGCuuCGaGGCG- -5'
18554 3' -53 NC_004682.1 + 26448 0.69 0.685932
Target:  5'- aGCGUCCAgcacCGucGUgCCGAucuuGCUcCCGCc -3'
miRNA:   3'- -CGCAGGU----GCuuCAaGGCUu---CGA-GGCG- -5'
18554 3' -53 NC_004682.1 + 26270 0.66 0.838273
Target:  5'- cGCGUUCGCGggGa--CGuuGUUgCCGCc -3'
miRNA:   3'- -CGCAGGUGCuuCaagGCuuCGA-GGCG- -5'
18554 3' -53 NC_004682.1 + 26251 0.7 0.641689
Target:  5'- cCGUCCGCGAGcUUCCGGugGGUgaaCUGCu -3'
miRNA:   3'- cGCAGGUGCUUcAAGGCU--UCGa--GGCG- -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.