miRNA display CGI


Results 1 - 20 of 62 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
24962 3' -53.9 NC_005284.1 + 48384 1.12 0.000828
Target:  5'- gACGACGGCACGCACAUCUAUCCGAGCg -3'
miRNA:   3'- -UGCUGCCGUGCGUGUAGAUAGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 16947 0.76 0.261177
Target:  5'- cACGACGacucaccccauaGCACGCACAUUccggcguUCCGGGCg -3'
miRNA:   3'- -UGCUGC------------CGUGCGUGUAGau-----AGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 11750 0.75 0.311824
Target:  5'- -gGACGGCACGCugGguUCgc-CCGAGUa -3'
miRNA:   3'- ugCUGCCGUGCGugU--AGauaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 15897 0.74 0.360904
Target:  5'- -aGGCGGUGCGCGCG-CUAUCgGuGCu -3'
miRNA:   3'- ugCUGCCGUGCGUGUaGAUAGgCuCG- -5'
24962 3' -53.9 NC_005284.1 + 27670 0.73 0.378417
Target:  5'- cGCGGCgGGCACGCGCAauugAUCCGucguuGCu -3'
miRNA:   3'- -UGCUG-CCGUGCGUGUaga-UAGGCu----CG- -5'
24962 3' -53.9 NC_005284.1 + 18020 0.73 0.378417
Target:  5'- uCGACGGCgacACGguCAcgCUcgCCGAGCg -3'
miRNA:   3'- uGCUGCCG---UGCguGUa-GAuaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 13300 0.73 0.387386
Target:  5'- -gGACGGugugaagaaCugGCACGUCg--CCGAGCg -3'
miRNA:   3'- ugCUGCC---------GugCGUGUAGauaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 47165 0.73 0.405737
Target:  5'- uACGAcCGGCGCGUACAUCaggcgCCGAa- -3'
miRNA:   3'- -UGCU-GCCGUGCGUGUAGaua--GGCUcg -5'
24962 3' -53.9 NC_005284.1 + 53656 0.72 0.424625
Target:  5'- cACGAUGGCgACGCGcCGUCgc-CCGGGUu -3'
miRNA:   3'- -UGCUGCCG-UGCGU-GUAGauaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 44886 0.72 0.453915
Target:  5'- uACGGC-GCACGC-CGUCgcucacaacAUCCGGGCg -3'
miRNA:   3'- -UGCUGcCGUGCGuGUAGa--------UAGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 9256 0.72 0.453915
Target:  5'- -gGGCGGCACGgAUAcgCUGUUCGAGa -3'
miRNA:   3'- ugCUGCCGUGCgUGUa-GAUAGGCUCg -5'
24962 3' -53.9 NC_005284.1 + 6676 0.71 0.473022
Target:  5'- gGCGACGGCcgGCGUACGg--GUCCGgacgaagGGCa -3'
miRNA:   3'- -UGCUGCCG--UGCGUGUagaUAGGC-------UCG- -5'
24962 3' -53.9 NC_005284.1 + 15467 0.71 0.474039
Target:  5'- cGCGAUcGUGCGCGacuggUAUCUcgCCGAGCg -3'
miRNA:   3'- -UGCUGcCGUGCGU-----GUAGAuaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 53039 0.71 0.474039
Target:  5'- uACGACGGUuuucgguauuGCGCACAgUUUcUUCGGGCa -3'
miRNA:   3'- -UGCUGCCG----------UGCGUGU-AGAuAGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 35866 0.71 0.474039
Target:  5'- uCGAuCGGCGCGCGCAgc--UCCGuGCc -3'
miRNA:   3'- uGCU-GCCGUGCGUGUagauAGGCuCG- -5'
24962 3' -53.9 NC_005284.1 + 9823 0.71 0.484268
Target:  5'- -gGAaauCGGCGCGCGCAUCa---CGGGCa -3'
miRNA:   3'- ugCU---GCCGUGCGUGUAGauagGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 11810 0.7 0.536867
Target:  5'- gGCGGagcaGGuCGCGCGCGagcgcggCUAUCuCGAGCa -3'
miRNA:   3'- -UGCUg---CC-GUGCGUGUa------GAUAG-GCUCG- -5'
24962 3' -53.9 NC_005284.1 + 8649 0.7 0.536867
Target:  5'- cGCGACGGCggGCGCACAgcggAUgCG-GCg -3'
miRNA:   3'- -UGCUGCCG--UGCGUGUaga-UAgGCuCG- -5'
24962 3' -53.9 NC_005284.1 + 47749 0.7 0.547636
Target:  5'- uACGGCGGCGCGCGUAc--GUCCGcguaAGCa -3'
miRNA:   3'- -UGCUGCCGUGCGUGUagaUAGGC----UCG- -5'
24962 3' -53.9 NC_005284.1 + 33133 0.7 0.566094
Target:  5'- cGCGGCGGCAucgugcgcggcgauCGCACGcugcUCggcgUCGAGCg -3'
miRNA:   3'- -UGCUGCCGU--------------GCGUGU----AGaua-GGCUCG- -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.