miRNA display CGI


Results 1 - 20 of 68 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
28016 3' -57.5 NC_005887.1 + 29539 0.66 0.581168
Target:  5'- aCGUCgCGCGCGACGGccugGCacaGGUUCUc -3'
miRNA:   3'- gGCGG-GUGUGCUGCCuua-CG---CCGAGG- -5'
28016 3' -57.5 NC_005887.1 + 1028 0.66 0.581168
Target:  5'- aCCGgCguCACGAcCGuGAUGCGGUguUCCu -3'
miRNA:   3'- -GGCgGguGUGCU-GCcUUACGCCG--AGG- -5'
28016 3' -57.5 NC_005887.1 + 12441 0.66 0.581168
Target:  5'- -gGCCCgcgGCAUGugGGAGUG-GGC-Cg -3'
miRNA:   3'- ggCGGG---UGUGCugCCUUACgCCGaGg -5'
28016 3' -57.5 NC_005887.1 + 12967 0.66 0.570407
Target:  5'- aCCGCgCCGCAugggcCGAgGGcAUGCcGCUCg -3'
miRNA:   3'- -GGCG-GGUGU-----GCUgCCuUACGcCGAGg -5'
28016 3' -57.5 NC_005887.1 + 4669 0.66 0.570407
Target:  5'- gUCGCUUGCAUG-CGGg--GCGGCUgCu -3'
miRNA:   3'- -GGCGGGUGUGCuGCCuuaCGCCGAgG- -5'
28016 3' -57.5 NC_005887.1 + 27074 0.66 0.563973
Target:  5'- cUCGUUCGC-CGGCGGAcgcucgccgcgcagcAcUGCGGCUgCCu -3'
miRNA:   3'- -GGCGGGUGuGCUGCCU---------------U-ACGCCGA-GG- -5'
28016 3' -57.5 NC_005887.1 + 32053 0.66 0.559695
Target:  5'- aCGCCCGCA-GACGGAAa-CGGgaCa -3'
miRNA:   3'- gGCGGGUGUgCUGCCUUacGCCgaGg -5'
28016 3' -57.5 NC_005887.1 + 16450 0.66 0.559695
Target:  5'- aCCGCgUGCGCG-CGGGcAUGC-GCUCg -3'
miRNA:   3'- -GGCGgGUGUGCuGCCU-UACGcCGAGg -5'
28016 3' -57.5 NC_005887.1 + 17887 0.66 0.559695
Target:  5'- cCUGUCCGcCGCGACGauGAAguucgGCGGCgUCa -3'
miRNA:   3'- -GGCGGGU-GUGCUGC--CUUa----CGCCG-AGg -5'
28016 3' -57.5 NC_005887.1 + 31505 0.66 0.559695
Target:  5'- gCCGCgCGCGCGGCGcGGAugaacgcaguUGUcGCUUCg -3'
miRNA:   3'- -GGCGgGUGUGCUGC-CUU----------ACGcCGAGG- -5'
28016 3' -57.5 NC_005887.1 + 39394 0.66 0.559695
Target:  5'- gUCGCCgGCGagGAUGGuc-GCGGCggugCCg -3'
miRNA:   3'- -GGCGGgUGUg-CUGCCuuaCGCCGa---GG- -5'
28016 3' -57.5 NC_005887.1 + 13860 0.66 0.553294
Target:  5'- cCCGCCgGCGCGcgucuacuucgucgaGCuGAA-GCGGC-CCg -3'
miRNA:   3'- -GGCGGgUGUGC---------------UGcCUUaCGCCGaGG- -5'
28016 3' -57.5 NC_005887.1 + 39778 0.66 0.549039
Target:  5'- aCCGCUCGC-CGcucACGGccAUGCGGCg-- -3'
miRNA:   3'- -GGCGGGUGuGC---UGCCu-UACGCCGagg -5'
28016 3' -57.5 NC_005887.1 + 14835 0.66 0.549039
Target:  5'- aCCGCCCGcCGCGuauucacgccAUGGGAguaccaGgGGCUCa -3'
miRNA:   3'- -GGCGGGU-GUGC----------UGCCUUa-----CgCCGAGg -5'
28016 3' -57.5 NC_005887.1 + 13165 0.66 0.549039
Target:  5'- gCCGCgCGCGCGcagacaGCGGGA-GCGGUcgagcaggCCg -3'
miRNA:   3'- -GGCGgGUGUGC------UGCCUUaCGCCGa-------GG- -5'
28016 3' -57.5 NC_005887.1 + 35897 0.66 0.549039
Target:  5'- gCGCCCggucuucggACA-GACGGAAUGCcGCguguugCCg -3'
miRNA:   3'- gGCGGG---------UGUgCUGCCUUACGcCGa-----GG- -5'
28016 3' -57.5 NC_005887.1 + 36952 0.66 0.538448
Target:  5'- gCCGCCCGC-CGGuucacCGGucgcGCuGGCUUCg -3'
miRNA:   3'- -GGCGGGUGuGCU-----GCCuua-CG-CCGAGG- -5'
28016 3' -57.5 NC_005887.1 + 27378 0.66 0.527927
Target:  5'- gCgGCCUGCGCGGCGuaggcgucGAGUuGCGGCgcgUCg -3'
miRNA:   3'- -GgCGGGUGUGCUGC--------CUUA-CGCCGa--GG- -5'
28016 3' -57.5 NC_005887.1 + 536 0.66 0.527927
Target:  5'- gUCGCCCuuCACGAuCGGcuUGUGGUUg- -3'
miRNA:   3'- -GGCGGGu-GUGCU-GCCuuACGCCGAgg -5'
28016 3' -57.5 NC_005887.1 + 8307 0.66 0.527927
Target:  5'- aCGCCgAUugGAC-GAGUGC-GCUCg -3'
miRNA:   3'- gGCGGgUGugCUGcCUUACGcCGAGg -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.