miRNA display CGI


Results 1 - 20 of 40 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
31790 3' -62.3 NC_006938.1 + 2836 0.67 0.358703
Target:  5'- cCGCCGAGuaGACCccguCCAGGAUgGCGgCGg -3'
miRNA:   3'- uGCGGCUC--CUGGu---GGUCCUG-CGCgGU- -5'
31790 3' -62.3 NC_006938.1 + 3602 0.67 0.350705
Target:  5'- cCGCCGuGG--UACCAGGcCGCGUCGa -3'
miRNA:   3'- uGCGGCuCCugGUGGUCCuGCGCGGU- -5'
31790 3' -62.3 NC_006938.1 + 5491 1.07 0.000387
Target:  5'- uACGCCGAGGACCACCAGGACGCGCCAc -3'
miRNA:   3'- -UGCGGCUCCUGGUGGUCCUGCGCGGU- -5'
31790 3' -62.3 NC_006938.1 + 6132 0.69 0.252191
Target:  5'- uAUGCCGGagccacGGGCUACgAGGACGCGgaCCGc -3'
miRNA:   3'- -UGCGGCU------CCUGGUGgUCCUGCGC--GGU- -5'
31790 3' -62.3 NC_006938.1 + 7720 0.69 0.271199
Target:  5'- uCGCUGAGGACCugggccgccuuGCCAGuGuACGCGgCGa -3'
miRNA:   3'- uGCGGCUCCUGG-----------UGGUC-C-UGCGCgGU- -5'
31790 3' -62.3 NC_006938.1 + 9204 0.67 0.349912
Target:  5'- gGCGuccuCCGAguGGACCACCcggacaucgAGGAguucauuCGCGCCAa -3'
miRNA:   3'- -UGC----GGCU--CCUGGUGG---------UCCU-------GCGCGGU- -5'
31790 3' -62.3 NC_006938.1 + 10198 0.7 0.212104
Target:  5'- -gGCCGAGGAgCACguGGACGUucucacagucGCCc -3'
miRNA:   3'- ugCGGCUCCUgGUGguCCUGCG----------CGGu -5'
31790 3' -62.3 NC_006938.1 + 11148 0.77 0.076026
Target:  5'- cGCGCCGAGGuacuCCAUCAuGGAgaucggcuuguCGCGCCAg -3'
miRNA:   3'- -UGCGGCUCCu---GGUGGU-CCU-----------GCGCGGU- -5'
31790 3' -62.3 NC_006938.1 + 12699 0.66 0.391952
Target:  5'- cGCGCC-AGuGACCcacgggucaCGGGACuGCGCCAg -3'
miRNA:   3'- -UGCGGcUC-CUGGug-------GUCCUG-CGCGGU- -5'
31790 3' -62.3 NC_006938.1 + 12847 0.66 0.38939
Target:  5'- aACGCCGAcgacaucgaccuguGGGCCaauccuggACCAGG-CGCucGCCGg -3'
miRNA:   3'- -UGCGGCU--------------CCUGG--------UGGUCCuGCG--CGGU- -5'
31790 3' -62.3 NC_006938.1 + 15737 0.66 0.400572
Target:  5'- cCGCUGAuGuCCGcguCCGGGGuCGCGCCAg -3'
miRNA:   3'- uGCGGCUcCuGGU---GGUCCU-GCGCGGU- -5'
31790 3' -62.3 NC_006938.1 + 18086 0.66 0.400572
Target:  5'- aGCGaCGaAGGAgCGUCGGGACGCGuCCGa -3'
miRNA:   3'- -UGCgGC-UCCUgGUGGUCCUGCGC-GGU- -5'
31790 3' -62.3 NC_006938.1 + 18250 0.66 0.383453
Target:  5'- -gGCaCGAGGGCCACUgcgaGGuGAC-CGCCGc -3'
miRNA:   3'- ugCG-GCUCCUGGUGG----UC-CUGcGCGGU- -5'
31790 3' -62.3 NC_006938.1 + 18260 0.76 0.089447
Target:  5'- cGCGCgGAGGGcguCCACCAGGAUGC-CCu -3'
miRNA:   3'- -UGCGgCUCCU---GGUGGUCCUGCGcGGu -5'
31790 3' -62.3 NC_006938.1 + 18703 0.67 0.366828
Target:  5'- uCGUCucGGuacuucugcGCCGCCucGGACGCGCCGg -3'
miRNA:   3'- uGCGGcuCC---------UGGUGGu-CCUGCGCGGU- -5'
31790 3' -62.3 NC_006938.1 + 18821 0.67 0.358703
Target:  5'- -gGUCGcGGGCgACgAGGGCGCGCg- -3'
miRNA:   3'- ugCGGCuCCUGgUGgUCCUGCGCGgu -5'
31790 3' -62.3 NC_006938.1 + 20939 0.7 0.206846
Target:  5'- gACGCCGAGGucucggGCCACCu---CGCGCUg -3'
miRNA:   3'- -UGCGGCUCC------UGGUGGuccuGCGCGGu -5'
31790 3' -62.3 NC_006938.1 + 22822 0.67 0.327477
Target:  5'- aGCGCCGggagucGGGACCgGCCGGGACcacccaauCGCUg -3'
miRNA:   3'- -UGCGGC------UCCUGG-UGGUCCUGc-------GCGGu -5'
31790 3' -62.3 NC_006938.1 + 26168 0.66 0.409312
Target:  5'- uUGCCGGGGACUccuccgcgcgACCAGcugccACGCaGCCGg -3'
miRNA:   3'- uGCGGCUCCUGG----------UGGUCc----UGCG-CGGU- -5'
31790 3' -62.3 NC_006938.1 + 26661 0.68 0.305409
Target:  5'- aACGgCGAGGGCCGCU-GGAC-CGCg- -3'
miRNA:   3'- -UGCgGCUCCUGGUGGuCCUGcGCGgu -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.