miRNA display CGI


Results 1 - 20 of 38 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
18386 3' -56.6 NC_004681.1 + 12937 1.09 0.001127
Target:  5'- aCGGAAAGGCCCUGAGCGGCAACGUCAc -3'
miRNA:   3'- -GCCUUUCCGGGACUCGCCGUUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 3772 0.79 0.131364
Target:  5'- aGGAucGGCgagaacuugaccaUCUGGGCGGCGACGUCGa -3'
miRNA:   3'- gCCUuuCCG-------------GGACUCGCCGUUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 24982 0.75 0.259907
Target:  5'- aCGG--GGGCUCUG-GCGGCAcagGCGUCGg -3'
miRNA:   3'- -GCCuuUCCGGGACuCGCCGU---UGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 15268 0.74 0.273136
Target:  5'- aGGAcauGGGaCCUGA-CGGCAACGUCAu -3'
miRNA:   3'- gCCUu--UCCgGGACUcGCCGUUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 73663 0.74 0.293984
Target:  5'- uGGAAGGGCUC--AGCGGUAAcCGUCAc -3'
miRNA:   3'- gCCUUUCCGGGacUCGCCGUU-GCAGU- -5'
18386 3' -56.6 NC_004681.1 + 10943 0.73 0.331445
Target:  5'- gGGAGAGGUCgCaaucgcGGCGGCGAUGUCAg -3'
miRNA:   3'- gCCUUUCCGG-Gac----UCGCCGUUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 19637 0.71 0.434985
Target:  5'- aGGguGGGCaagCCUGGGaCGGCAGCGgCAu -3'
miRNA:   3'- gCCuuUCCG---GGACUC-GCCGUUGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 41912 0.71 0.44443
Target:  5'- gGGAAAuGCCCcGGGaGGCGGCGUCu -3'
miRNA:   3'- gCCUUUcCGGGaCUCgCCGUUGCAGu -5'
18386 3' -56.6 NC_004681.1 + 17879 0.7 0.482319
Target:  5'- aGGAccuccagAAGGaauuCCUGGGCGGCGGCGgCGa -3'
miRNA:   3'- gCCU-------UUCCg---GGACUCGCCGUUGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 1575 0.7 0.503357
Target:  5'- aGGAAGacGGCCCcaagaacgGAGCGG-AGCGUCu -3'
miRNA:   3'- gCCUUU--CCGGGa-------CUCGCCgUUGCAGu -5'
18386 3' -56.6 NC_004681.1 + 24253 0.69 0.513514
Target:  5'- aGGAGaacAGGCCCUuGGCGGCGuccgACG-CGa -3'
miRNA:   3'- gCCUU---UCCGGGAcUCGCCGU----UGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 32218 0.69 0.554917
Target:  5'- uGGAGcAGGCCaucGcAGCGGCAGCG-CGg -3'
miRNA:   3'- gCCUU-UCCGGga-C-UCGCCGUUGCaGU- -5'
18386 3' -56.6 NC_004681.1 + 53677 0.69 0.554917
Target:  5'- gGGAggugGAGGaCCUUGccGGUGGCGACGUUc -3'
miRNA:   3'- gCCU----UUCC-GGGAC--UCGCCGUUGCAGu -5'
18386 3' -56.6 NC_004681.1 + 33428 0.69 0.565429
Target:  5'- gCGGGcGGGuGCCCUGGaCGGCgAACGUCc -3'
miRNA:   3'- -GCCU-UUC-CGGGACUcGCCG-UUGCAGu -5'
18386 3' -56.6 NC_004681.1 + 46759 0.68 0.597241
Target:  5'- gGGAccGGCgCUGcGCGcGCAcgGCGUCAc -3'
miRNA:   3'- gCCUuuCCGgGACuCGC-CGU--UGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 8826 0.68 0.607912
Target:  5'- aCGGguAGGUCCcGGcuucagcgaccGCGGCGGCGUUg -3'
miRNA:   3'- -GCCuuUCCGGGaCU-----------CGCCGUUGCAGu -5'
18386 3' -56.6 NC_004681.1 + 39508 0.68 0.629305
Target:  5'- gCGGGAcucauGGCCCaagcGGGCuGGCAaucccgGCGUCAg -3'
miRNA:   3'- -GCCUUu----CCGGGa---CUCG-CCGU------UGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 59193 0.68 0.633587
Target:  5'- aCGGAc-GGCCUcccGGGCGGCucguccagcuuccagAACGUCAg -3'
miRNA:   3'- -GCCUuuCCGGGa--CUCGCCG---------------UUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 14873 0.67 0.640009
Target:  5'- aGGAu-GGCCa-GGGCGuccGCGGCGUCAc -3'
miRNA:   3'- gCCUuuCCGGgaCUCGC---CGUUGCAGU- -5'
18386 3' -56.6 NC_004681.1 + 49637 0.67 0.661388
Target:  5'- gGGGAAGGCC---AG-GGCGAUGUCGg -3'
miRNA:   3'- gCCUUUCCGGgacUCgCCGUUGCAGU- -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.