miRNA display CGI


Results 1 - 20 of 47 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
12032 3' -61.8 NC_003278.1 + 21523 0.66 0.300519
Target:  5'- gGcCUGGuCAGCgCgGGCCGUCa-GGCUg -3'
miRNA:   3'- gC-GACC-GUUGgGaCCGGCAGgaCCGG- -5'
12032 3' -61.8 NC_003278.1 + 21398 0.66 0.29904
Target:  5'- gCGCUGGaCGgcgcgcuugaucuGCCCUaagccggcgagcaGGCCGUUCaccaGGCCc -3'
miRNA:   3'- -GCGACC-GU-------------UGGGA-------------CCGGCAGGa---CCGG- -5'
12032 3' -61.8 NC_003278.1 + 9469 0.66 0.29318
Target:  5'- gCGCaGGCccgccuGGCCCaGGCCGagUUGGCg -3'
miRNA:   3'- -GCGaCCG------UUGGGaCCGGCagGACCGg -5'
12032 3' -61.8 NC_003278.1 + 23076 0.66 0.29318
Target:  5'- uGCaGGUAGCggugCUGGUCGccaUCCUGGCg -3'
miRNA:   3'- gCGaCCGUUGg---GACCGGC---AGGACCGg -5'
12032 3' -61.8 NC_003278.1 + 19364 0.66 0.278925
Target:  5'- gCGC-GGC-GCCCUGGagcaggucagcaCCG-CgCUGGCCg -3'
miRNA:   3'- -GCGaCCGuUGGGACC------------GGCaG-GACCGG- -5'
12032 3' -61.8 NC_003278.1 + 8035 0.66 0.272006
Target:  5'- uGCUGuucGguGCCCUGcUCGgcgCCUGGCUg -3'
miRNA:   3'- gCGAC---CguUGGGACcGGCa--GGACCGG- -5'
12032 3' -61.8 NC_003278.1 + 20297 0.66 0.258584
Target:  5'- gCGgUGGUgaccgucuccaGGCUCUGGCCGUaCUcgcGGCCg -3'
miRNA:   3'- -GCgACCG-----------UUGGGACCGGCAgGA---CCGG- -5'
12032 3' -61.8 NC_003278.1 + 15519 0.66 0.258584
Target:  5'- aCGCUGGUAugcacuGCCgUGGCCaGUCCcuGCg -3'
miRNA:   3'- -GCGACCGU------UGGgACCGG-CAGGacCGg -5'
12032 3' -61.8 NC_003278.1 + 17601 0.66 0.258584
Target:  5'- gGUUGGCAcaagACCCUGucgaacgucGCCGUCaacGGCg -3'
miRNA:   3'- gCGACCGU----UGGGAC---------CGGCAGga-CCGg -5'
12032 3' -61.8 NC_003278.1 + 28288 0.66 0.257927
Target:  5'- cCGCgGGCAugggccagguacGCCCgGGCCGaggcggcggguUCCuugucggUGGCCg -3'
miRNA:   3'- -GCGaCCGU------------UGGGaCCGGC-----------AGG-------ACCGG- -5'
12032 3' -61.8 NC_003278.1 + 1299 0.67 0.252078
Target:  5'- uGCUGaCAaaGCCCUGGCCa-CaaGGCCa -3'
miRNA:   3'- gCGACcGU--UGGGACCGGcaGgaCCGG- -5'
12032 3' -61.8 NC_003278.1 + 2375 0.67 0.250153
Target:  5'- gGCacGGCcACCCUGGCgCGggaugaacucgccuUCCUGGgCg -3'
miRNA:   3'- gCGa-CCGuUGGGACCG-GC--------------AGGACCgG- -5'
12032 3' -61.8 NC_003278.1 + 4194 0.67 0.245078
Target:  5'- gGCUGGCGugUCUGcgacaucGCCGaccaCCUGGgCg -3'
miRNA:   3'- gCGACCGUugGGAC-------CGGCa---GGACCgG- -5'
12032 3' -61.8 NC_003278.1 + 20426 0.67 0.239472
Target:  5'- cCGUUGGCAuCCUUGGuCUGgacgcccagCUUGGCUa -3'
miRNA:   3'- -GCGACCGUuGGGACC-GGCa--------GGACCGG- -5'
12032 3' -61.8 NC_003278.1 + 9550 0.67 0.235794
Target:  5'- uCGCUGGCuuuccucgccaacucGGCCUgGGCCaGgcgggCCUGcGCCa -3'
miRNA:   3'- -GCGACCG---------------UUGGGaCCGG-Ca----GGAC-CGG- -5'
12032 3' -61.8 NC_003278.1 + 27784 0.67 0.233368
Target:  5'- gGCUGGuCAGCCaguacgaaGCCG-CCaUGGCCg -3'
miRNA:   3'- gCGACC-GUUGGgac-----CGGCaGG-ACCGG- -5'
12032 3' -61.8 NC_003278.1 + 9570 0.67 0.233368
Target:  5'- cCGCgagcGCcaGGCCCaGGCCGaCCUGGaCCa -3'
miRNA:   3'- -GCGac--CG--UUGGGaCCGGCaGGACC-GG- -5'
12032 3' -61.8 NC_003278.1 + 21696 0.68 0.21584
Target:  5'- gCGCcGGCGcucuuGCCCaGGUCGcCCagcaUGGCCa -3'
miRNA:   3'- -GCGaCCGU-----UGGGaCCGGCaGG----ACCGG- -5'
12032 3' -61.8 NC_003278.1 + 3488 0.68 0.210253
Target:  5'- uGCcgUGGUAGCCCUGGgCaGUCCgcgcguugGuGCCg -3'
miRNA:   3'- gCG--ACCGUUGGGACCgG-CAGGa-------C-CGG- -5'
12032 3' -61.8 NC_003278.1 + 22119 0.68 0.20479
Target:  5'- gGCagaUGGCuGACaCCgGGUCGgCCUGGCCc -3'
miRNA:   3'- gCG---ACCG-UUG-GGaCCGGCaGGACCGG- -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.