miRNA display CGI


Results 1 - 20 of 29 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
18293 3' -56.3 NC_004681.1 + 26398 0.67 0.661388
Target:  5'- aCCCG-GCG--CAGUGCGGcCACGUCg -3'
miRNA:   3'- aGGGUaCGCugGUCGCGCUuGUGCAG- -5'
18293 3' -56.3 NC_004681.1 + 57896 0.71 0.473433
Target:  5'- aCCUcgGCGGCgCGGCGCGugguCGCGgUCu -3'
miRNA:   3'- aGGGuaCGCUG-GUCGCGCuu--GUGC-AG- -5'
18293 3' -56.3 NC_004681.1 + 13672 0.7 0.513514
Target:  5'- gCCC--GCGGCCuugaAGCGCGcgUACGUCu -3'
miRNA:   3'- aGGGuaCGCUGG----UCGCGCuuGUGCAG- -5'
18293 3' -56.3 NC_004681.1 + 6785 0.69 0.534073
Target:  5'- cUUCCGcuCGGCCAGUGCGAgcuGCACGg- -3'
miRNA:   3'- -AGGGUacGCUGGUCGCGCU---UGUGCag -5'
18293 3' -56.3 NC_004681.1 + 41904 0.69 0.554916
Target:  5'- cCCCGggagGCGGCgucuuccacugCGGCGCGAAgGcCGUCg -3'
miRNA:   3'- aGGGUa---CGCUG-----------GUCGCGCUUgU-GCAG- -5'
18293 3' -56.3 NC_004681.1 + 53450 0.69 0.586598
Target:  5'- aCCCAcucgucUGgGGCCAuGCGUGAGCGCa-- -3'
miRNA:   3'- aGGGU------ACgCUGGU-CGCGCUUGUGcag -5'
18293 3' -56.3 NC_004681.1 + 3875 0.68 0.596175
Target:  5'- gCCCAgUGCaGACuucgcguCAGCgGCGAugACGUCg -3'
miRNA:   3'- aGGGU-ACG-CUG-------GUCG-CGCUugUGCAG- -5'
18293 3' -56.3 NC_004681.1 + 33402 0.68 0.601506
Target:  5'- gUCCCGgcguacaccgcggcGCGACCGGCGuCGAugACa-- -3'
miRNA:   3'- -AGGGUa-------------CGCUGGUCGC-GCUugUGcag -5'
18293 3' -56.3 NC_004681.1 + 60648 0.68 0.607912
Target:  5'- gCCCGagGCGugCGGCGUGAcuacccuucgGCcCGUCu -3'
miRNA:   3'- aGGGUa-CGCugGUCGCGCU----------UGuGCAG- -5'
18293 3' -56.3 NC_004681.1 + 7970 0.73 0.331444
Target:  5'- gUCUCAU-CGACgGGCGCGGGCucuuCGUCa -3'
miRNA:   3'- -AGGGUAcGCUGgUCGCGCUUGu---GCAG- -5'
18293 3' -56.3 NC_004681.1 + 28795 1.11 0.000919
Target:  5'- gUCCCAUGCGACCAGCGCGAACACGUCa -3'
miRNA:   3'- -AGGGUACGCUGGUCGCGCUUGUGCAG- -5'
18293 3' -56.3 NC_004681.1 + 24896 0.66 0.752135
Target:  5'- gCCCAUGCGGgCaugggaauuuccguGGCGCcagcGAGCGCGa- -3'
miRNA:   3'- aGGGUACGCUgG--------------UCGCG----CUUGUGCag -5'
18293 3' -56.3 NC_004681.1 + 41768 0.67 0.682663
Target:  5'- gCCgAUGcCGACC-GCGCuGAACAUGgUCa -3'
miRNA:   3'- aGGgUAC-GCUGGuCGCG-CUUGUGC-AG- -5'
18293 3' -56.3 NC_004681.1 + 32628 0.66 0.769063
Target:  5'- -gCCA-GCGGCCaccaggaacucacccAGCGCGAucaGgACGUCg -3'
miRNA:   3'- agGGUaCGCUGG---------------UCGCGCU---UgUGCAG- -5'
18293 3' -56.3 NC_004681.1 + 16789 0.67 0.703756
Target:  5'- aCCCggGaacaGGCCGGUGCucgGAGCGcCGUCg -3'
miRNA:   3'- aGGGuaCg---CUGGUCGCG---CUUGU-GCAG- -5'
18293 3' -56.3 NC_004681.1 + 4192 0.66 0.745065
Target:  5'- cUCCCAcgagaggaaGCGAcCCAGCGCGGGguugGCGUg -3'
miRNA:   3'- -AGGGUa--------CGCU-GGUCGCGCUUg---UGCAg -5'
18293 3' -56.3 NC_004681.1 + 22498 0.66 0.714209
Target:  5'- -gCCGUccGCGGCCGGgGUGAccaGCGUCc -3'
miRNA:   3'- agGGUA--CGCUGGUCgCGCUug-UGCAG- -5'
18293 3' -56.3 NC_004681.1 + 18668 0.66 0.734874
Target:  5'- aCCCAUgGCGACCuuGC-CGAACcACGa- -3'
miRNA:   3'- aGGGUA-CGCUGGu-CGcGCUUG-UGCag -5'
18293 3' -56.3 NC_004681.1 + 69001 0.68 0.650706
Target:  5'- -gCCGUGaCGAuggUCAGCGCcucGAugGCGUCg -3'
miRNA:   3'- agGGUAC-GCU---GGUCGCG---CUugUGCAG- -5'
18293 3' -56.3 NC_004681.1 + 31540 0.67 0.693238
Target:  5'- gUCCCGcaaGAUCAGUGgGAcCGCGUCu -3'
miRNA:   3'- -AGGGUacgCUGGUCGCgCUuGUGCAG- -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.