miRNA display CGI


Results 1 - 20 of 22 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
21194 5' -48 NC_004778.3 + 118126 0.66 0.998488
Target:  5'- aAAAUCGGCGGCGGC-GC-CGGUUc-- -3'
miRNA:   3'- -UUUAGUUGUCGCUGaCGcGUCAAuag -5'
21194 5' -48 NC_004778.3 + 124372 0.66 0.998488
Target:  5'- ---cCGGCGGCGGCUGaCGgGGgUGUUg -3'
miRNA:   3'- uuuaGUUGUCGCUGAC-GCgUCaAUAG- -5'
21194 5' -48 NC_004778.3 + 71483 0.66 0.997781
Target:  5'- -uGUCGGCGGgGGCguugGCGgAGgaGUCg -3'
miRNA:   3'- uuUAGUUGUCgCUGa---CGCgUCaaUAG- -5'
21194 5' -48 NC_004778.3 + 83824 0.66 0.997781
Target:  5'- --cUCAACGccGCGACgaggGCGCGGcUAUg -3'
miRNA:   3'- uuuAGUUGU--CGCUGa---CGCGUCaAUAg -5'
21194 5' -48 NC_004778.3 + 81850 0.66 0.997781
Target:  5'- cGGAUCGggaGCGGCGGCgguagaccaugGUGCuagAGUUGUCa -3'
miRNA:   3'- -UUUAGU---UGUCGCUGa----------CGCG---UCAAUAG- -5'
21194 5' -48 NC_004778.3 + 95254 0.66 0.99774
Target:  5'- ---aCAACAGCcacagcacguccuGcauGCUGCGCAGcUUGUCg -3'
miRNA:   3'- uuuaGUUGUCG-------------C---UGACGCGUC-AAUAG- -5'
21194 5' -48 NC_004778.3 + 31769 0.66 0.997335
Target:  5'- --uUCAAguGUGAUUGCGCA---AUCa -3'
miRNA:   3'- uuuAGUUguCGCUGACGCGUcaaUAG- -5'
21194 5' -48 NC_004778.3 + 12094 0.66 0.997335
Target:  5'- ---gCAGCuauGCGGCUGCGCaAGcaAUCu -3'
miRNA:   3'- uuuaGUUGu--CGCUGACGCG-UCaaUAG- -5'
21194 5' -48 NC_004778.3 + 106619 0.67 0.99553
Target:  5'- -cAUUAACGGCGugucgcaaacGCUGCGCAGc---- -3'
miRNA:   3'- uuUAGUUGUCGC----------UGACGCGUCaauag -5'
21194 5' -48 NC_004778.3 + 90507 0.67 0.99553
Target:  5'- ---gCGGuCAGUGGCcGCGCAGUUAc- -3'
miRNA:   3'- uuuaGUU-GUCGCUGaCGCGUCAAUag -5'
21194 5' -48 NC_004778.3 + 63725 0.67 0.99553
Target:  5'- cGGGUCgAACAGCGACcGCGCGa----- -3'
miRNA:   3'- -UUUAG-UUGUCGCUGaCGCGUcaauag -5'
21194 5' -48 NC_004778.3 + 88625 0.67 0.99553
Target:  5'- ---gCAGCAGCGuCUGCGCGu----- -3'
miRNA:   3'- uuuaGUUGUCGCuGACGCGUcaauag -5'
21194 5' -48 NC_004778.3 + 34164 0.67 0.993847
Target:  5'- ---cCGGCGGCGacaaGCUGCGCAGc---- -3'
miRNA:   3'- uuuaGUUGUCGC----UGACGCGUCaauag -5'
21194 5' -48 NC_004778.3 + 119113 0.67 0.992833
Target:  5'- cAAGUUGACcGCGACgcGCGCAGUa--- -3'
miRNA:   3'- -UUUAGUUGuCGCUGa-CGCGUCAauag -5'
21194 5' -48 NC_004778.3 + 122844 0.68 0.989852
Target:  5'- ---cCAACAGCGGCuauaaaaUGCGUcguuugucuaaaaaGGUUAUCg -3'
miRNA:   3'- uuuaGUUGUCGCUG-------ACGCG--------------UCAAUAG- -5'
21194 5' -48 NC_004778.3 + 985 0.68 0.98561
Target:  5'- cGGcgCAGCAGCGGCUccaacGCGUGGcgGUCc -3'
miRNA:   3'- -UUuaGUUGUCGCUGA-----CGCGUCaaUAG- -5'
21194 5' -48 NC_004778.3 + 54130 0.7 0.970794
Target:  5'- ---cCGACAGUGACcuuguUGCGCAGUa--- -3'
miRNA:   3'- uuuaGUUGUCGCUG-----ACGCGUCAauag -5'
21194 5' -48 NC_004778.3 + 115095 0.7 0.964018
Target:  5'- --uUCGuCAGCGAUgccGCGCGcGUUAUCg -3'
miRNA:   3'- uuuAGUuGUCGCUGa--CGCGU-CAAUAG- -5'
21194 5' -48 NC_004778.3 + 32778 0.7 0.960247
Target:  5'- uGAAgu-GCAGCGACUGCGCGaacauGgaGUCg -3'
miRNA:   3'- -UUUaguUGUCGCUGACGCGU-----CaaUAG- -5'
21194 5' -48 NC_004778.3 + 119363 0.71 0.947328
Target:  5'- -uGUCAAUAGUGAgCUgGCGCAGUUuacugcGUCg -3'
miRNA:   3'- uuUAGUUGUCGCU-GA-CGCGUCAA------UAG- -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.