miRNA display CGI


Results 1 - 20 of 33 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
30467 3' -61.8 NC_006548.1 + 20563 0.66 0.325205
Target:  5'- uGCGGCGuCGAcGCcuucuauuGCGGGUUcggagaacgacgCCuGGGCa -3'
miRNA:   3'- -CGCCGC-GCU-CG--------UGCCCGAa-----------GGuCCCG- -5'
30467 3' -61.8 NC_006548.1 + 1261 0.66 0.3221
Target:  5'- cGCGGUGCG-GCAgGcuuGGCUuugagcgucgaauucUcggCCAGGGCu -3'
miRNA:   3'- -CGCCGCGCuCGUgC---CCGA---------------A---GGUCCCG- -5'
30467 3' -61.8 NC_006548.1 + 4873 0.66 0.31825
Target:  5'- cGCGaaGCGuGCcucCGGGCUcgauuucggccgcUCCAGuGGCg -3'
miRNA:   3'- -CGCcgCGCuCGu--GCCCGA-------------AGGUC-CCG- -5'
30467 3' -61.8 NC_006548.1 + 29621 0.66 0.303937
Target:  5'- uGCGGcCGCGA--AUGGGCU-CgCAGGuGCu -3'
miRNA:   3'- -CGCC-GCGCUcgUGCCCGAaG-GUCC-CG- -5'
30467 3' -61.8 NC_006548.1 + 24029 0.66 0.296604
Target:  5'- gGCaGuCGCGAGCGCcugccaggccGGGCggugUCCAgccgaucaGGGCc -3'
miRNA:   3'- -CGcC-GCGCUCGUG----------CCCGa---AGGU--------CCCG- -5'
30467 3' -61.8 NC_006548.1 + 2307 0.66 0.296604
Target:  5'- gGCGGCGCcgGAGCugACcGGCUacgccuaCCAGGuGCu -3'
miRNA:   3'- -CGCCGCG--CUCG--UGcCCGAa------GGUCC-CG- -5'
30467 3' -61.8 NC_006548.1 + 24923 0.66 0.28941
Target:  5'- cUGGCGCucaucaacgacGAGUACGGcaCUUCCAgcucacGGGCa -3'
miRNA:   3'- cGCCGCG-----------CUCGUGCCc-GAAGGU------CCCG- -5'
30467 3' -61.8 NC_006548.1 + 35962 0.66 0.28941
Target:  5'- gGCGGCGCGcgacuGCaACGugucgacgucGGCUauccgcaagcUCCAGGuGCg -3'
miRNA:   3'- -CGCCGCGCu----CG-UGC----------CCGA----------AGGUCC-CG- -5'
30467 3' -61.8 NC_006548.1 + 35878 0.66 0.28941
Target:  5'- cCGGCGCGAuccGCGCGG----CCGGcGGCg -3'
miRNA:   3'- cGCCGCGCU---CGUGCCcgaaGGUC-CCG- -5'
30467 3' -61.8 NC_006548.1 + 27217 0.66 0.28941
Target:  5'- gGCGGCGacCGAGCaACGcGCUgCCGaGGCg -3'
miRNA:   3'- -CGCCGC--GCUCG-UGCcCGAaGGUcCCG- -5'
30467 3' -61.8 NC_006548.1 + 21008 0.66 0.28941
Target:  5'- uGCaGCGCGAGCGCaGaGCUaUCAGGa- -3'
miRNA:   3'- -CGcCGCGCUCGUGcC-CGAaGGUCCcg -5'
30467 3' -61.8 NC_006548.1 + 13163 0.66 0.282353
Target:  5'- gGCGcGCGCGAccugcugcuuGUACuGGa--CCAGGGCg -3'
miRNA:   3'- -CGC-CGCGCU----------CGUGcCCgaaGGUCCCG- -5'
30467 3' -61.8 NC_006548.1 + 18247 0.66 0.282353
Target:  5'- -aGGCGCugacuGAGCACuGGCaUCCccagccauuGGGCg -3'
miRNA:   3'- cgCCGCG-----CUCGUGcCCGaAGGu--------CCCG- -5'
30467 3' -61.8 NC_006548.1 + 7191 0.67 0.275434
Target:  5'- aGCGGCGCaAGgACucgGGGCagagCCgccuGGGGCg -3'
miRNA:   3'- -CGCCGCGcUCgUG---CCCGaa--GG----UCCCG- -5'
30467 3' -61.8 NC_006548.1 + 12830 0.67 0.268651
Target:  5'- aGCGGCGCGguaAGUcCGGuGUggCUcGGGCg -3'
miRNA:   3'- -CGCCGCGC---UCGuGCC-CGaaGGuCCCG- -5'
30467 3' -61.8 NC_006548.1 + 27482 0.67 0.261345
Target:  5'- cUGGCGCucaauGGCAUggGGGCUgcaauucgacgggUCCAGGGg -3'
miRNA:   3'- cGCCGCGc----UCGUG--CCCGA-------------AGGUCCCg -5'
30467 3' -61.8 NC_006548.1 + 23546 0.67 0.255489
Target:  5'- uCGGCGaUGAGCugcaGGaaUUUCAGGGCg -3'
miRNA:   3'- cGCCGC-GCUCGug--CCcgAAGGUCCCG- -5'
30467 3' -61.8 NC_006548.1 + 34993 0.67 0.242861
Target:  5'- uGCGGagGCGAGCaAUGGGCggCCGuaGCa -3'
miRNA:   3'- -CGCCg-CGCUCG-UGCCCGaaGGUccCG- -5'
30467 3' -61.8 NC_006548.1 + 30427 0.68 0.236745
Target:  5'- gGCGGCacgGCGuucaauGCugGGGCgaucccgcCCGGuGGCg -3'
miRNA:   3'- -CGCCG---CGCu-----CGugCCCGaa------GGUC-CCG- -5'
30467 3' -61.8 NC_006548.1 + 9015 0.68 0.219166
Target:  5'- gGCGaGCGCG-GCACccaGGuCUUCCAGuuccGGCg -3'
miRNA:   3'- -CGC-CGCGCuCGUGc--CC-GAAGGUC----CCG- -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.