miRNA display CGI


Results 1 - 20 of 100 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
25959 3' -63.4 NC_005337.1 + 126138 1.11 0.000415
Target:  5'- cGCGGCCAUGCCCGGCGUCCCCGACUCg -3'
miRNA:   3'- -CGCCGGUACGGGCCGCAGGGGCUGAG- -5'
25959 3' -63.4 NC_005337.1 + 96269 0.81 0.060053
Target:  5'- aUGGCCAUG-CCGGCGUUCCCGGCg- -3'
miRNA:   3'- cGCCGGUACgGGCCGCAGGGGCUGag -5'
25959 3' -63.4 NC_005337.1 + 39535 0.76 0.149115
Target:  5'- cGCGGUCGUGgcugCCGGCG-CCCCGGCg- -3'
miRNA:   3'- -CGCCGGUACg---GGCCGCaGGGGCUGag -5'
25959 3' -63.4 NC_005337.1 + 41624 0.75 0.156595
Target:  5'- -aGGCCGUggugcgacGCCCGGCGUCUCCGuggaUCg -3'
miRNA:   3'- cgCCGGUA--------CGGGCCGCAGGGGCug--AG- -5'
25959 3' -63.4 NC_005337.1 + 125402 0.75 0.160071
Target:  5'- cGCGGCCcuugguccugaccGUGCCCGGgGccagucgCCCCGuGCUCg -3'
miRNA:   3'- -CGCCGG-------------UACGGGCCgCa------GGGGC-UGAG- -5'
25959 3' -63.4 NC_005337.1 + 84541 0.75 0.168453
Target:  5'- gGCGcaCCGUGUCCGGCGUCCC--GCUCa -3'
miRNA:   3'- -CGCc-GGUACGGGCCGCAGGGgcUGAG- -5'
25959 3' -63.4 NC_005337.1 + 66151 0.74 0.181108
Target:  5'- cGCGGCCAccgGCCCcGCGaCCCCGAgUa -3'
miRNA:   3'- -CGCCGGUa--CGGGcCGCaGGGGCUgAg -5'
25959 3' -63.4 NC_005337.1 + 10700 0.73 0.208959
Target:  5'- gGCGGCCAggaGCUCGGgcuCGUCCuCCGAC-Cg -3'
miRNA:   3'- -CGCCGGUa--CGGGCC---GCAGG-GGCUGaG- -5'
25959 3' -63.4 NC_005337.1 + 96839 0.73 0.213946
Target:  5'- cGCaGCCGcgGCgUGGCGUucCCCCGGCUCc -3'
miRNA:   3'- -CGcCGGUa-CGgGCCGCA--GGGGCUGAG- -5'
25959 3' -63.4 NC_005337.1 + 123833 0.73 0.219034
Target:  5'- gGCGGCUccGuCCCGGCGUUCgCGGCg- -3'
miRNA:   3'- -CGCCGGuaC-GGGCCGCAGGgGCUGag -5'
25959 3' -63.4 NC_005337.1 + 54148 0.73 0.229521
Target:  5'- cGCGuGUCGcGCCCGGUGUCcacgaccgCCUGGCUCg -3'
miRNA:   3'- -CGC-CGGUaCGGGCCGCAG--------GGGCUGAG- -5'
25959 3' -63.4 NC_005337.1 + 86671 0.73 0.231669
Target:  5'- cGCGGCCGcgcGCgCGGCGUCgCCCacgcccagcggcugcGGCUCg -3'
miRNA:   3'- -CGCCGGUa--CGgGCCGCAG-GGG---------------CUGAG- -5'
25959 3' -63.4 NC_005337.1 + 100658 0.73 0.234922
Target:  5'- -gGGCCugaagGaCCCGGCGUCCgCGACg- -3'
miRNA:   3'- cgCCGGua---C-GGGCCGCAGGgGCUGag -5'
25959 3' -63.4 NC_005337.1 + 89016 0.72 0.240429
Target:  5'- uGCGGCCGUGguugaaCCCguacGGCGUCCCgaCGAgCUCg -3'
miRNA:   3'- -CGCCGGUAC------GGG----CCGCAGGG--GCU-GAG- -5'
25959 3' -63.4 NC_005337.1 + 56944 0.72 0.244912
Target:  5'- cGUGGCCu--CCCGGCGggagaugcuggaCCCCGACUg -3'
miRNA:   3'- -CGCCGGuacGGGCCGCa-----------GGGGCUGAg -5'
25959 3' -63.4 NC_005337.1 + 88310 0.72 0.257009
Target:  5'- aGCGGCUccuggaaAUGCCCGuGCG-CUCCGGCg- -3'
miRNA:   3'- -CGCCGG-------UACGGGC-CGCaGGGGCUGag -5'
25959 3' -63.4 NC_005337.1 + 52888 0.72 0.257597
Target:  5'- aGUGG-CGUGCCCGu--UCCCCGACUCc -3'
miRNA:   3'- -CGCCgGUACGGGCcgcAGGGGCUGAG- -5'
25959 3' -63.4 NC_005337.1 + 84415 0.72 0.257597
Target:  5'- uGCGGCUgcugAUGCcgCCGGCGUCCCgG-UUCg -3'
miRNA:   3'- -CGCCGG----UACG--GGCCGCAGGGgCuGAG- -5'
25959 3' -63.4 NC_005337.1 + 23079 0.72 0.265947
Target:  5'- gGCGGCCGUGCCCGGCaucgugcgcgcggugGUcagcaacuucaaCCCCGcCg- -3'
miRNA:   3'- -CGCCGGUACGGGCCG---------------CA------------GGGGCuGag -5'
25959 3' -63.4 NC_005337.1 + 95808 0.72 0.269592
Target:  5'- -gGGCCGcacUGCCCGGgGUCCauguCCGGCa- -3'
miRNA:   3'- cgCCGGU---ACGGGCCgCAGG----GGCUGag -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.