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 + 629 0.68 0.321217
Target:  5'- cGGCCGGCCUGGaacagcugcCGAaaggaugGCGG-CGGCa -3'
miRNA:   3'- -CCGGCUGGACCga-------GCU-------CGCCaGCUGg -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 + 2866 0.69 0.264622
Target:  5'- uGGCCG-CCUGcaggcGCUCGucgaaGGCGauguuGUCGGCCa -3'
miRNA:   3'- -CCGGCuGGAC-----CGAGC-----UCGC-----CAGCUGG- -5'
30416 3' -60 NC_006548.1 + 4619 0.67 0.379409
Target:  5'- cGGCCGGgCUGGCaagcaguugucCGAgGUGGUgGACg -3'
miRNA:   3'- -CCGGCUgGACCGa----------GCU-CGCCAgCUGg -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 + 5482 0.82 0.033544
Target:  5'- aGGUCGACC--GCUCGAGCcaGGUCGGCCu -3'
miRNA:   3'- -CCGGCUGGacCGAGCUCG--CCAGCUGG- -5'
30416 3' -60 NC_006548.1 + 5546 1.13 0.000138
Target:  5'- aGGCCGACCUGGCUCGAGCGGUCGACCu -3'
miRNA:   3'- -CCGGCUGGACCGAGCUCGCCAGCUGG- -5'
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 + 7570 0.67 0.345776
Target:  5'- uGGCCGAgCaGGC-CGAGgagcaaGGUgcCGACCa -3'
miRNA:   3'- -CCGGCUgGaCCGaGCUCg-----CCA--GCUGG- -5'
30416 3' -60 NC_006548.1 + 8459 0.82 0.029039
Target:  5'- aGGCCGGCCUGGC-CGAGCGuagagaagaCGGCCg -3'
miRNA:   3'- -CCGGCUGGACCGaGCUCGCca-------GCUGG- -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 + 12167 0.7 0.215828
Target:  5'- cGCCgcGugCUGGUUCGAGCGG-CGcauGCUg -3'
miRNA:   3'- cCGG--CugGACCGAGCUCGCCaGC---UGG- -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 + 13550 0.66 0.424422
Target:  5'- uGCUGACCUuccucGGUgccugcgCGGGCGG-CGGCa -3'
miRNA:   3'- cCGGCUGGA-----CCGa------GCUCGCCaGCUGg -5'
30416 3' -60 NC_006548.1 + 14378 0.72 0.173097
Target:  5'- cGGCuuCGGCCUGGCUCGGGaacugcgccugcaGGUccgCGAUCa -3'
miRNA:   3'- -CCG--GCUGGACCGAGCUCg------------CCA---GCUGG- -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 + 16526 0.67 0.337709
Target:  5'- uGCCGcaGCCUGGUcgaUCGGGCGaUC-ACCg -3'
miRNA:   3'- cCGGC--UGGACCG---AGCUCGCcAGcUGG- -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 + 17126 0.69 0.278142
Target:  5'- cGCC-ACCUGGC-CGAGCc--CGACCu -3'
miRNA:   3'- cCGGcUGGACCGaGCUCGccaGCUGG- -5'
30416 3' -60 NC_006548.1 + 17441 0.67 0.379409
Target:  5'- cGCCGugGCCUcGGCcUGGGUGGacucaacuUCGACCc -3'
miRNA:   3'- cCGGC--UGGA-CCGaGCUCGCC--------AGCUGG- -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.