miRNA display CGI


Results 1 - 20 of 42 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
30416 3' -60 NC_006548.1 + 5584 0.68 0.29149
Target:  5'- gGGCCGGCUugcgcaacugguUGGCgauggcgUCGAGCuGGUCuuCCg -3'
miRNA:   3'- -CCGGCUGG------------ACCG-------AGCUCG-CCAGcuGG- -5'
30416 3' -60 NC_006548.1 + 16838 0.72 0.161485
Target:  5'- uGGCUGAucuuCCUGGacaaguUCGguaugcccacGGCGGUCGGCCg -3'
miRNA:   3'- -CCGGCU----GGACCg-----AGC----------UCGCCAGCUGG- -5'
30416 3' -60 NC_006548.1 + 31374 0.71 0.194451
Target:  5'- gGGaCCGACCgucgcacaGCU-GAGCGGUgGGCCg -3'
miRNA:   3'- -CC-GGCUGGac------CGAgCUCGCCAgCUGG- -5'
30416 3' -60 NC_006548.1 + 21346 0.74 0.126535
Target:  5'- cGGCCGAcgcCCaGGggCGAGCGGUUG-CCg -3'
miRNA:   3'- -CCGGCU---GGaCCgaGCUCGCCAGCuGG- -5'
30416 3' -60 NC_006548.1 + 33141 0.74 0.113364
Target:  5'- gGGCUGGCCgGuGCUCGGGCaG-CGGCCc -3'
miRNA:   3'- -CCGGCUGGaC-CGAGCUCGcCaGCUGG- -5'
30416 3' -60 NC_006548.1 + 33384 0.76 0.090784
Target:  5'- cGCCGACCUGGUgcuggUCGAcacaGUGGcugCGACCa -3'
miRNA:   3'- cCGGCUGGACCG-----AGCU----CGCCa--GCUGG- -5'
30416 3' -60 NC_006548.1 + 5482 0.82 0.033544
Target:  5'- aGGUCGACC--GCUCGAGCcaGGUCGGCCu -3'
miRNA:   3'- -CCGGCUGGacCGAGCUCG--CCAGCUGG- -5'
30416 3' -60 NC_006548.1 + 1268 0.7 0.245348
Target:  5'- cGGCaGGCUUGGCuUUGAGCGucgaauucUCGGCCa -3'
miRNA:   3'- -CCGgCUGGACCG-AGCUCGCc-------AGCUGG- -5'
30416 3' -60 NC_006548.1 + 12543 0.7 0.21977
Target:  5'- aGCUGGCCUGGUucgauuccgUCGAGCGcuucaacgccgggcGcUCGGCCg -3'
miRNA:   3'- cCGGCUGGACCG---------AGCUCGC--------------C-AGCUGG- -5'
30416 3' -60 NC_006548.1 + 2866 0.69 0.264622
Target:  5'- uGGCCG-CCUGcaggcGCUCGucgaaGGCGauguuGUCGGCCa -3'
miRNA:   3'- -CCGGCuGGAC-----CGAGC-----UCGC-----CAGCUGG- -5'
30416 3' -60 NC_006548.1 + 9832 0.77 0.074381
Target:  5'- uGCCGGCCUGGCggaagCGuuGCuucaccuGGUCGGCCg -3'
miRNA:   3'- cCGGCUGGACCGa----GCu-CG-------CCAGCUGG- -5'
30416 3' -60 NC_006548.1 + 23131 0.68 0.29149
Target:  5'- uGGCCGAacguCCUGGUgccgaggaguugUCGcaAGCGGcuacaccUCGGCCu -3'
miRNA:   3'- -CCGGCU----GGACCG------------AGC--UCGCC-------AGCUGG- -5'
30416 3' -60 NC_006548.1 + 27334 0.68 0.321989
Target:  5'- cGCUcGCCUGGC-CGAGCaGGagcggcagUUGACCg -3'
miRNA:   3'- cCGGcUGGACCGaGCUCG-CC--------AGCUGG- -5'
30416 3' -60 NC_006548.1 + 4844 0.68 0.330567
Target:  5'- uGGCUGACCUucaaGGCUCGgugcaauugcgcgaAGCGuGccuccgggcucgauuUCGGCCg -3'
miRNA:   3'- -CCGGCUGGA----CCGAGC--------------UCGC-C---------------AGCUGG- -5'
30416 3' -60 NC_006548.1 + 32592 0.67 0.344963
Target:  5'- gGGCUGA--UGGCgugcaggagucacUgGAGUGGUUGACCg -3'
miRNA:   3'- -CCGGCUggACCG-------------AgCUCGCCAGCUGG- -5'
30416 3' -60 NC_006548.1 + 15802 0.67 0.362322
Target:  5'- -aCCGGCCUGGgUaucggcUGGGCGGaCGACg -3'
miRNA:   3'- ccGGCUGGACCgA------GCUCGCCaGCUGg -5'
30416 3' -60 NC_006548.1 + 21291 0.67 0.362322
Target:  5'- -uCCGGCCUGGCgccggUCGAGUacGG-CGGCa -3'
miRNA:   3'- ccGGCUGGACCG-----AGCUCG--CCaGCUGg -5'
30416 3' -60 NC_006548.1 + 38259 0.66 0.415165
Target:  5'- aGCUGACC--GCUCugucuGAGCGGgUGGCCg -3'
miRNA:   3'- cCGGCUGGacCGAG-----CUCGCCaGCUGG- -5'
30416 3' -60 NC_006548.1 + 13550 0.66 0.424422
Target:  5'- uGCUGACCUuccucGGUgccugcgCGGGCGG-CGGCa -3'
miRNA:   3'- cCGGCUGGA-----CCGa------GCUCGCCaGCUGg -5'
30416 3' -60 NC_006548.1 + 27193 0.66 0.424422
Target:  5'- uGCCGAgC-GuGCUCGcguccagcaGGCGG-CGACCg -3'
miRNA:   3'- cCGGCUgGaC-CGAGC---------UCGCCaGCUGG- -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.