miRNA display CGI


Results 1 - 20 of 30 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
7232 3' -59.4 NC_001900.1 + 13361 0.68 0.366149
Target:  5'- gUCGAGCgcaugauCCGGCGUCGGAuCCCAGAu- -3'
miRNA:   3'- -AGCUCG-------GGCUGUGGCCUcGGGUCUuc -5'
7232 3' -59.4 NC_001900.1 + 2578 0.78 0.075914
Target:  5'- gCGuAGCCCGACGgCGGgaacucaaGGCCCGGAGGa -3'
miRNA:   3'- aGC-UCGGGCUGUgGCC--------UCGGGUCUUC- -5'
7232 3' -59.4 NC_001900.1 + 13833 0.79 0.064086
Target:  5'- aUGAGCCuccuCGAUACCGGAGCCCGGu-- -3'
miRNA:   3'- aGCUCGG----GCUGUGGCCUCGGGUCuuc -5'
7232 3' -59.4 NC_001900.1 + 37283 0.66 0.467942
Target:  5'- aCG-GCCCG-CAgCGGGGCCaGGAAc -3'
miRNA:   3'- aGCuCGGGCuGUgGCCUCGGgUCUUc -5'
7232 3' -59.4 NC_001900.1 + 33023 0.66 0.458168
Target:  5'- cUGcGCCUG-CugCGGAGCCCgAGAc- -3'
miRNA:   3'- aGCuCGGGCuGugGCCUCGGG-UCUuc -5'
7232 3' -59.4 NC_001900.1 + 42076 0.66 0.458168
Target:  5'- aCGGGCCgGugACguggUGGAGCCCGa--- -3'
miRNA:   3'- aGCUCGGgCugUG----GCCUCGGGUcuuc -5'
7232 3' -59.4 NC_001900.1 + 23829 0.71 0.224794
Target:  5'- aUCGGcGCuggcuuCCGGCGCUGGGGCUgGGAAGg -3'
miRNA:   3'- -AGCU-CG------GGCUGUGGCCUCGGgUCUUC- -5'
7232 3' -59.4 NC_001900.1 + 32423 0.66 0.467942
Target:  5'- -gGAGCCCGACagcuccguaaacGCCGGGGgcacauggauuCCCAGc-- -3'
miRNA:   3'- agCUCGGGCUG------------UGGCCUC-----------GGGUCuuc -5'
7232 3' -59.4 NC_001900.1 + 29952 0.67 0.438953
Target:  5'- aUCGAgGCCaugaCGugACCGGGGUCagcgaGGAAGc -3'
miRNA:   3'- -AGCU-CGG----GCugUGGCCUCGGg----UCUUC- -5'
7232 3' -59.4 NC_001900.1 + 8558 0.68 0.366995
Target:  5'- uUCGAGCuggcuCCGcuGgACCGGGGC-CAGAAGa -3'
miRNA:   3'- -AGCUCG-----GGC--UgUGGCCUCGgGUCUUC- -5'
7232 3' -59.4 NC_001900.1 + 24136 0.67 0.429519
Target:  5'- -aGGGCUccaccugguCGACAacacgUCGGAuGCCCAGAAGa -3'
miRNA:   3'- agCUCGG---------GCUGU-----GGCCU-CGGGUCUUC- -5'
7232 3' -59.4 NC_001900.1 + 27371 0.66 0.477823
Target:  5'- --cAGCCCcu--CCaGAGCCCAGAGGg -3'
miRNA:   3'- agcUCGGGcuguGGcCUCGGGUCUUC- -5'
7232 3' -59.4 NC_001900.1 + 10713 0.66 0.477823
Target:  5'- aCGAGCCCGGua-UGGAGUUCGcGAAGu -3'
miRNA:   3'- aGCUCGGGCUgugGCCUCGGGU-CUUC- -5'
7232 3' -59.4 NC_001900.1 + 25951 0.66 0.445626
Target:  5'- -aGGGCCgaccaGAagugguuccacgucUGCUGGAGCCCGGAGGc -3'
miRNA:   3'- agCUCGGg----CU--------------GUGGCCUCGGGUCUUC- -5'
7232 3' -59.4 NC_001900.1 + 16657 0.71 0.236605
Target:  5'- gUCGGGCuCCGACGCCGacaaGGCCaaGGAAGu -3'
miRNA:   3'- -AGCUCG-GGCUGUGGCc---UCGGg-UCUUC- -5'
7232 3' -59.4 NC_001900.1 + 13135 0.7 0.289102
Target:  5'- aCGAGCcgCCGAUcCCGGAGuuCCUGGGAGg -3'
miRNA:   3'- aGCUCG--GGCUGuGGCCUC--GGGUCUUC- -5'
7232 3' -59.4 NC_001900.1 + 28012 0.69 0.296271
Target:  5'- -gGAGCCCucGgGCUGGuGCCCAGGAa -3'
miRNA:   3'- agCUCGGGc-UgUGGCCuCGGGUCUUc -5'
7232 3' -59.4 NC_001900.1 + 34153 0.69 0.301372
Target:  5'- cCGAGCCUGAucaggcccuggauuCGCCaGGAGUCCugguAGAGGg -3'
miRNA:   3'- aGCUCGGGCU--------------GUGG-CCUCGGG----UCUUC- -5'
7232 3' -59.4 NC_001900.1 + 38657 0.67 0.438953
Target:  5'- gCGAGCCCGcucACGCgGGAucacGCCCuGGc- -3'
miRNA:   3'- aGCUCGGGC---UGUGgCCU----CGGGuCUuc -5'
7232 3' -59.4 NC_001900.1 + 25414 0.68 0.349499
Target:  5'- -aGAGCCUcuACGCCGGuAGCCCAacugcgcGAGGu -3'
miRNA:   3'- agCUCGGGc-UGUGGCC-UCGGGU-------CUUC- -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.