miRNA display CGI


Results 1 - 20 of 54 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
28065 3' -64.4 NC_005887.1 + 1487 0.67 0.188088
Target:  5'- -cGGCgUGCGGCGCucGCGcGGCgcGGCCg -3'
miRNA:   3'- uuCCG-GCGCUGCGc-CGCaCCGa-CCGG- -5'
28065 3' -64.4 NC_005887.1 + 1582 0.66 0.219547
Target:  5'- uGGGCCG-GugGgUGG-GUGGC-GGCCu -3'
miRNA:   3'- uUCCGGCgCugC-GCCgCACCGaCCGG- -5'
28065 3' -64.4 NC_005887.1 + 1833 0.66 0.230992
Target:  5'- --uGCCGCG-CGCcGCGUGGUggauGCCg -3'
miRNA:   3'- uucCGGCGCuGCGcCGCACCGac--CGG- -5'
28065 3' -64.4 NC_005887.1 + 4142 0.65 0.242327
Target:  5'- cAAGGCUGCG-CGCGaC-UGGCUcggguauugagccGGCCa -3'
miRNA:   3'- -UUCCGGCGCuGCGCcGcACCGA-------------CCGG- -5'
28065 3' -64.4 NC_005887.1 + 4596 0.66 0.229244
Target:  5'- cAGGCCGCGcagauGCaacagaugcucgccGCGGCGccGgUGGCCg -3'
miRNA:   3'- uUCCGGCGC-----UG--------------CGCCGCacCgACCGG- -5'
28065 3' -64.4 NC_005887.1 + 5761 0.71 0.088488
Target:  5'- cGAGGCCGCGAa--GGC---GCUGGCCg -3'
miRNA:   3'- -UUCCGGCGCUgcgCCGcacCGACCGG- -5'
28065 3' -64.4 NC_005887.1 + 6989 0.7 0.116401
Target:  5'- cAGGcCCGCGugGUgccgGGCGUGaaGCUcguGGCCg -3'
miRNA:   3'- uUCC-GGCGCugCG----CCGCAC--CGA---CCGG- -5'
28065 3' -64.4 NC_005887.1 + 7028 0.67 0.183726
Target:  5'- --cGCCGCGgcGCGCGGCaGUGGagcgaugcagagaaGGCCg -3'
miRNA:   3'- uucCGGCGC--UGCGCCG-CACCga------------CCGG- -5'
28065 3' -64.4 NC_005887.1 + 7715 0.67 0.183247
Target:  5'- -cGGCgCGCcucgucGACGCgaacGGCGaaUGGCUGGCg -3'
miRNA:   3'- uuCCG-GCG------CUGCG----CCGC--ACCGACCGg -5'
28065 3' -64.4 NC_005887.1 + 10031 0.67 0.178517
Target:  5'- -cGGCgUGUGGuccuacgcacUGCGGCGcgccGGCUGGCCc -3'
miRNA:   3'- uuCCG-GCGCU----------GCGCCGCa---CCGACCGG- -5'
28065 3' -64.4 NC_005887.1 + 11811 0.66 0.219547
Target:  5'- --cGCUGCuGCGUGGCGUcucGGCcgacGGCCg -3'
miRNA:   3'- uucCGGCGcUGCGCCGCA---CCGa---CCGG- -5'
28065 3' -64.4 NC_005887.1 + 12139 1.09 0.000087
Target:  5'- gAAGGCCGCGACGCGGCGUGGCUGGCCg -3'
miRNA:   3'- -UUCCGGCGCUGCGCCGCACCGACCGG- -5'
28065 3' -64.4 NC_005887.1 + 12600 0.73 0.067015
Target:  5'- -cGGCCGCGACGCucGGCGUG-CUGacgcagaaGCCc -3'
miRNA:   3'- uuCCGGCGCUGCG--CCGCACcGAC--------CGG- -5'
28065 3' -64.4 NC_005887.1 + 13392 0.68 0.169381
Target:  5'- gAAGGCCG--GCGCGGCGgacgucGGC-GGCa -3'
miRNA:   3'- -UUCCGGCgcUGCGCCGCa-----CCGaCCGg -5'
28065 3' -64.4 NC_005887.1 + 13593 0.7 0.124233
Target:  5'- gGAGGCCGCGuacuucaucgcugcuGgcagCGCGGCGcgcGGC-GGCCg -3'
miRNA:   3'- -UUCCGGCGC---------------U----GCGCCGCa--CCGaCCGG- -5'
28065 3' -64.4 NC_005887.1 + 13953 0.69 0.140622
Target:  5'- -cGGCUGCGACGUGcGCGUGaCgacaGCCg -3'
miRNA:   3'- uuCCGGCGCUGCGC-CGCACcGac--CGG- -5'
28065 3' -64.4 NC_005887.1 + 14695 0.72 0.072867
Target:  5'- cGGGCU-CGuCGCGGCG-GGCgGGCCg -3'
miRNA:   3'- uUCCGGcGCuGCGCCGCaCCGaCCGG- -5'
28065 3' -64.4 NC_005887.1 + 14823 0.72 0.086076
Target:  5'- -cGGCCGCGACGCugauGGCG-GGCacguucgcgGGCg -3'
miRNA:   3'- uuCCGGCGCUGCG----CCGCaCCGa--------CCGg -5'
28065 3' -64.4 NC_005887.1 + 16462 0.67 0.19254
Target:  5'- cGGGCaugcgcucgaccgCGCGGCaggaucCGGCG-GGCUGGUCg -3'
miRNA:   3'- uUCCG-------------GCGCUGc-----GCCGCaCCGACCGG- -5'
28065 3' -64.4 NC_005887.1 + 16859 0.66 0.236901
Target:  5'- cGAGGuguaCCGCGGCGCGGac-GGCUcgacaGGCa -3'
miRNA:   3'- -UUCC----GGCGCUGCGCCgcaCCGA-----CCGg -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.