miRNA display CGI


Results 1 - 20 of 125 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
19287 3' -63.6 NC_004685.1 + 108 0.7 0.210807
Target:  5'- uGGCCGcuaggcgguagcggcGACCGGCgcgggcgCGGCUGCCGGgguggCCg -3'
miRNA:   3'- gCCGGU---------------CUGGCCG-------GUCGGCGGUCa----GG- -5'
19287 3' -63.6 NC_004685.1 + 1082 0.7 0.194261
Target:  5'- uGGUUAGACCauugGGCCGGCCGgCugguGUUCg -3'
miRNA:   3'- gCCGGUCUGG----CCGGUCGGCgGu---CAGG- -5'
19287 3' -63.6 NC_004685.1 + 1217 0.66 0.38345
Target:  5'- gGGCCgcaucGGACUGG-CGGCCGCCcaUCg -3'
miRNA:   3'- gCCGG-----UCUGGCCgGUCGGCGGucAGg -5'
19287 3' -63.6 NC_004685.1 + 1803 0.67 0.321044
Target:  5'- aCGGCCAGcgcgacGCCGGCgC-GCCGCgA-UCCc -3'
miRNA:   3'- -GCCGGUC------UGGCCG-GuCGGCGgUcAGG- -5'
19287 3' -63.6 NC_004685.1 + 1890 0.67 0.328413
Target:  5'- uCGGUCAGGCCgcGGCCGuGCCcGCUgcGG-CCg -3'
miRNA:   3'- -GCCGGUCUGG--CCGGU-CGG-CGG--UCaGG- -5'
19287 3' -63.6 NC_004685.1 + 2235 0.74 0.116521
Target:  5'- gGuGCCAGACCuGCCuGCCGcCCGG-CCg -3'
miRNA:   3'- gC-CGGUCUGGcCGGuCGGC-GGUCaGG- -5'
19287 3' -63.6 NC_004685.1 + 2372 0.68 0.272936
Target:  5'- gGGCCAGcguUCGGCCAGCacgaGCUuggcggcgcGGUCg -3'
miRNA:   3'- gCCGGUCu--GGCCGGUCGg---CGG---------UCAGg -5'
19287 3' -63.6 NC_004685.1 + 2893 0.72 0.162896
Target:  5'- uGGCCAgGAUCGGgcacCCGGCC-CCAGUgCCg -3'
miRNA:   3'- gCCGGU-CUGGCC----GGUCGGcGGUCA-GG- -5'
19287 3' -63.6 NC_004685.1 + 2991 0.69 0.236454
Target:  5'- gGGCUcc-CUGGCUuuCCGCCGGUCCa -3'
miRNA:   3'- gCCGGucuGGCCGGucGGCGGUCAGG- -5'
19287 3' -63.6 NC_004685.1 + 3241 0.73 0.129298
Target:  5'- gGGUCGGGCCGGaCCAucGgCGCCGGUUUg -3'
miRNA:   3'- gCCGGUCUGGCC-GGU--CgGCGGUCAGG- -5'
19287 3' -63.6 NC_004685.1 + 3938 0.66 0.38345
Target:  5'- gCGGCCuGGACCcucagcGGCUcaGGCUcggGCgCGGUCCa -3'
miRNA:   3'- -GCCGG-UCUGG------CCGG--UCGG---CG-GUCAGG- -5'
19287 3' -63.6 NC_004685.1 + 4263 0.71 0.189476
Target:  5'- gCGGUCAGuGCCGGaaucccaCGGUCGCuCAGUCUc -3'
miRNA:   3'- -GCCGGUC-UGGCCg------GUCGGCG-GUCAGG- -5'
19287 3' -63.6 NC_004685.1 + 5437 0.67 0.316682
Target:  5'- uGGCCAGgguggaccuguaucuGCgGGCCGGC-GCgGGUCa -3'
miRNA:   3'- gCCGGUC---------------UGgCCGGUCGgCGgUCAGg -5'
19287 3' -63.6 NC_004685.1 + 5491 0.66 0.39941
Target:  5'- uGGCC-GACaugguggCGGCCAucGCCGCCgAGcggCCg -3'
miRNA:   3'- gCCGGuCUG-------GCCGGU--CGGCGG-UCa--GG- -5'
19287 3' -63.6 NC_004685.1 + 5691 0.69 0.260296
Target:  5'- uCGGCCGGcaacGCUGGCUgaccgagacgcGGgUGCCAGUCa -3'
miRNA:   3'- -GCCGGUC----UGGCCGG-----------UCgGCGGUCAGg -5'
19287 3' -63.6 NC_004685.1 + 6527 0.66 0.390957
Target:  5'- uGGUCgacaucaAGACCGGCCAGCCcaccgacaaGCagcaGGUgCg -3'
miRNA:   3'- gCCGG-------UCUGGCCGGUCGG---------CGg---UCAgG- -5'
19287 3' -63.6 NC_004685.1 + 6617 0.68 0.284063
Target:  5'- -cGCCGGGCCGuccgaaaaGCCAGUCgagaccuggaagagGCCGGUCUg -3'
miRNA:   3'- gcCGGUCUGGC--------CGGUCGG--------------CGGUCAGG- -5'
19287 3' -63.6 NC_004685.1 + 6746 0.69 0.230786
Target:  5'- -cGCCGGAUCGGCCGggcauGUCGCC-GUCg -3'
miRNA:   3'- gcCGGUCUGGCCGGU-----CGGCGGuCAGg -5'
19287 3' -63.6 NC_004685.1 + 7567 0.71 0.175739
Target:  5'- uGGCCAGcCCGGUCAaCCGCaacgAGUUCg -3'
miRNA:   3'- gCCGGUCuGGCCGGUcGGCGg---UCAGG- -5'
19287 3' -63.6 NC_004685.1 + 8474 0.69 0.242237
Target:  5'- gCGGCCGcGCUGGCCgaGGCugagCGCCgguggGGUCCg -3'
miRNA:   3'- -GCCGGUcUGGCCGG--UCG----GCGG-----UCAGG- -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.