miRNA display CGI


Results 1 - 20 of 37 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
24860 3' -54.7 NC_005284.1 + 25672 0.79 0.145288
Target:  5'- --gCAGCCGU-UCGCGCGAGCCAagcCUCu -3'
miRNA:   3'- ggaGUUGGCAuAGCGCGCUCGGU---GAG- -5'
24860 3' -54.7 NC_005284.1 + 10022 0.65 0.780827
Target:  5'- gCCUUgcgcaAGCCGagcgugaUGUCGCGCuuGCCACg- -3'
miRNA:   3'- -GGAG-----UUGGC-------AUAGCGCGcuCGGUGag -5'
24860 3' -54.7 NC_005284.1 + 23167 0.66 0.771815
Target:  5'- --cCGAUCGUcgCgGCGCGuuCCGCUCg -3'
miRNA:   3'- ggaGUUGGCAuaG-CGCGCucGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 39925 0.66 0.751385
Target:  5'- -gUCGGCUGcugCGUuuuCGAGCCACUCg -3'
miRNA:   3'- ggAGUUGGCauaGCGc--GCUCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 41592 0.66 0.73047
Target:  5'- -aUCAA-CGUAcgCGCGCGAGgCCGCg- -3'
miRNA:   3'- ggAGUUgGCAUa-GCGCGCUC-GGUGag -5'
24860 3' -54.7 NC_005284.1 + 51222 0.67 0.681023
Target:  5'- aCUCGccaagcgcuGCaCGUGUCGUucaugauucuggcgaGCGAGCCACg- -3'
miRNA:   3'- gGAGU---------UG-GCAUAGCG---------------CGCUCGGUGag -5'
24860 3' -54.7 NC_005284.1 + 39811 0.68 0.665729
Target:  5'- gCUUCAACCGgg-C-CGCGuGCCGCa- -3'
miRNA:   3'- -GGAGUUGGCauaGcGCGCuCGGUGag -5'
24860 3' -54.7 NC_005284.1 + 1213 0.68 0.632786
Target:  5'- ---uGACCGgcaugggCGCGCGccggcAGCCGCUCa -3'
miRNA:   3'- ggagUUGGCaua----GCGCGC-----UCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 51691 0.68 0.62179
Target:  5'- aUCUCGAgCGcaguuUCgGCGCGAGCCAUa- -3'
miRNA:   3'- -GGAGUUgGCau---AG-CGCGCUCGGUGag -5'
24860 3' -54.7 NC_005284.1 + 47891 0.73 0.343617
Target:  5'- aCCUCAACCGcgcUUGCGCGAGCagUUCc -3'
miRNA:   3'- -GGAGUUGGCau-AGCGCGCUCGguGAG- -5'
24860 3' -54.7 NC_005284.1 + 42857 0.71 0.442853
Target:  5'- aCCUCGcaggaaguagaGCCG-AUUGgGCGGGCCuCUCg -3'
miRNA:   3'- -GGAGU-----------UGGCaUAGCgCGCUCGGuGAG- -5'
24860 3' -54.7 NC_005284.1 + 33964 0.71 0.472605
Target:  5'- uCgUCGGCCGg--CGCugcuGCGGGCUGCUCg -3'
miRNA:   3'- -GgAGUUGGCauaGCG----CGCUCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 9411 0.69 0.56713
Target:  5'- aCCUCGACgGcAUCGUgaaacucgGCGuGUCGCUCg -3'
miRNA:   3'- -GGAGUUGgCaUAGCG--------CGCuCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 25529 0.69 0.57799
Target:  5'- --gCGGCCGUcGUCGUGCGcgcGUCGCUCu -3'
miRNA:   3'- ggaGUUGGCA-UAGCGCGCu--CGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 36339 0.69 0.57799
Target:  5'- uCUUCAAUCGccuucucgAUCGCGCcGGCCGCg- -3'
miRNA:   3'- -GGAGUUGGCa-------UAGCGCGcUCGGUGag -5'
24860 3' -54.7 NC_005284.1 + 24501 1.12 0.000744
Target:  5'- gCCUCAACCGUAUCGCGCGAGCCACUCg -3'
miRNA:   3'- -GGAGUUGGCAUAGCGCGCUCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 4769 0.66 0.755513
Target:  5'- uCCUUGAgcaagcagcgguacgUCGUGggGCGCGAGCCuucgaugcGCUCg -3'
miRNA:   3'- -GGAGUU---------------GGCAUagCGCGCUCGG--------UGAG- -5'
24860 3' -54.7 NC_005284.1 + 7304 0.66 0.751385
Target:  5'- uCCUCGgugugGCCGacGUCGagcauGCGAGCCAucuuCUCg -3'
miRNA:   3'- -GGAGU-----UGGCa-UAGCg----CGCUCGGU----GAG- -5'
24860 3' -54.7 NC_005284.1 + 28211 0.66 0.751385
Target:  5'- gCUCGACUGUG--GCGaacGCCACUCu -3'
miRNA:   3'- gGAGUUGGCAUagCGCgcuCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 32152 0.66 0.748276
Target:  5'- --cCGAUCGUaacgaucgaugcagGUCGCccaauCGAGCCGCUCg -3'
miRNA:   3'- ggaGUUGGCA--------------UAGCGc----GCUCGGUGAG- -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.