miRNA display CGI


Results 1 - 20 of 55 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
9500 3' -59.2 NC_002531.1 + 8202 0.71 0.45951
Target:  5'- cUGUGgaaauGGCCAcauaGCCCagcaGCCAggaGUGGGACCu -3'
miRNA:   3'- -ACAC-----CCGGU----UGGGc---CGGU---UACCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 20400 0.71 0.429872
Target:  5'- gUGUGGGCaUcuuggugcacgcgaGGCCUGGCCAGU-GGACUg -3'
miRNA:   3'- -ACACCCG-G--------------UUGGGCCGGUUAcCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 36010 0.7 0.525699
Target:  5'- ---uGGCCGuugCCGGCCAcgGGGGCg -3'
miRNA:   3'- acacCCGGUug-GGCCGGUuaCCCUGg -5'
9500 3' -59.2 NC_002531.1 + 38492 0.7 0.48737
Target:  5'- --gGGGUCAACCCGGCCuaaaaccccAcgGGGGu- -3'
miRNA:   3'- acaCCCGGUUGGGCCGG---------UuaCCCUgg -5'
9500 3' -59.2 NC_002531.1 + 49064 0.67 0.69595
Target:  5'- gGUGGGCCAgauaucucACCCG-CCA---GGGCUg -3'
miRNA:   3'- aCACCCGGU--------UGGGCcGGUuacCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 53766 0.66 0.725545
Target:  5'- gUGUGGGCCAgguccauagACCaucGCCAcaccGUGGGuACa -3'
miRNA:   3'- -ACACCCGGU---------UGGgc-CGGU----UACCC-UGg -5'
9500 3' -59.2 NC_002531.1 + 54152 0.67 0.705879
Target:  5'- --aGGGCCuuggagcgcucGCCCaGCUugcGUGGGGCCc -3'
miRNA:   3'- acaCCCGGu----------UGGGcCGGu--UACCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 55270 0.72 0.406476
Target:  5'- ---uGG-CGACCCGGCCAuaGUGGaGACCg -3'
miRNA:   3'- acacCCgGUUGGGCCGGU--UACC-CUGG- -5'
9500 3' -59.2 NC_002531.1 + 73574 0.66 0.763861
Target:  5'- uUGUGGGagAAUgaGGCCAuugcagGGGGCUa -3'
miRNA:   3'- -ACACCCggUUGggCCGGUua----CCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 78175 1.12 0.00077
Target:  5'- gUGUGGGCCAACCCGGCCAAUGGGACCg -3'
miRNA:   3'- -ACACCCGGUUGGGCCGGUUACCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 80679 0.68 0.601212
Target:  5'- -cUGGGCCGcUCCGGCCuggcagccaaGGGCCu -3'
miRNA:   3'- acACCCGGUuGGGCCGGuuac------CCUGG- -5'
9500 3' -59.2 NC_002531.1 + 94021 0.67 0.705879
Target:  5'- --cGGGCCA----GGCUggUGGGGCUg -3'
miRNA:   3'- acaCCCGGUugggCCGGuuACCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 99459 0.66 0.743937
Target:  5'- --aGGGCCAcuugaacGCCUGGCCGuagGUGGuaaguGACa -3'
miRNA:   3'- acaCCCGGU-------UGGGCCGGU---UACC-----CUGg -5'
9500 3' -59.2 NC_002531.1 + 101441 0.67 0.685969
Target:  5'- -uUGGGCuCAGggacCCCGGCCAuuAUGaGACUg -3'
miRNA:   3'- acACCCG-GUU----GGGCCGGU--UACcCUGG- -5'
9500 3' -59.2 NC_002531.1 + 114002 0.67 0.705879
Target:  5'- --gGGGCCAccuagccagccaGCCCGGggac-GGGGCCa -3'
miRNA:   3'- acaCCCGGU------------UGGGCCgguuaCCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 114060 0.67 0.705879
Target:  5'- --gGGGCCAccuagccagccaGCCCGGggac-GGGGCCa -3'
miRNA:   3'- acaCCCGGU------------UGGGCCgguuaCCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 114118 0.67 0.705879
Target:  5'- --gGGGCCAccuagccagccaGCCCGGggac-GGGGCCa -3'
miRNA:   3'- acaCCCGGU------------UGGGCCgguuaCCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 114176 0.67 0.705879
Target:  5'- --gGGGCCAccuagccagccaGCCCGGggac-GGGGCCa -3'
miRNA:   3'- acaCCCGGU------------UGGGCCgguuaCCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 114234 0.67 0.705879
Target:  5'- --gGGGCCAccuagccagccaGCCCGGggac-GGGGCCa -3'
miRNA:   3'- acaCCCGGU------------UGGGCCgguuaCCCUGG- -5'
9500 3' -59.2 NC_002531.1 + 114292 0.67 0.705879
Target:  5'- --gGGGCCAccuagccagccaGCCCGGggac-GGGGCCa -3'
miRNA:   3'- acaCCCGGU------------UGGGCCgguuaCCCUGG- -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.