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 + 10153 0.66 0.487805
Target:  5'- ---uGCCUGGcCugCGGAGUCCgAGggGa -3'
miRNA:   3'- agcuCGGGCU-GugGCCUCGGG-UCuuC- -5'
7232 3' -59.4 NC_001900.1 + 39271 0.66 0.4848
Target:  5'- cCGGGUCCGGuucggaagcgggacCACCGGgaccgcgccgAGCCCGuGggGg -3'
miRNA:   3'- aGCUCGGGCU--------------GUGGCC----------UCGGGU-CuuC- -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 + 27371 0.66 0.477823
Target:  5'- --cAGCCCcu--CCaGAGCCCAGAGGg -3'
miRNA:   3'- agcUCGGGcuguGGcCUCGGGUCUUC- -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 + 37283 0.66 0.467942
Target:  5'- aCG-GCCCG-CAgCGGGGCCaGGAAc -3'
miRNA:   3'- aGCuCGGGCuGUgGCCUCGGgUCUUc -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 + 33023 0.66 0.458168
Target:  5'- cUGcGCCUG-CugCGGAGCCCgAGAc- -3'
miRNA:   3'- aGCuCGGGCuGugGCCUCGGG-UCUuc -5'
7232 3' -59.4 NC_001900.1 + 7325 0.66 0.458168
Target:  5'- gUCGGGUguaccuCCGACGCCGacguGGCCuCAGAGa -3'
miRNA:   3'- -AGCUCG------GGCUGUGGCc---UCGG-GUCUUc -5'
7232 3' -59.4 NC_001900.1 + 31802 0.66 0.448503
Target:  5'- gUCGAGaugaCCGGC-CC-GAGCCCGguGAAGa -3'
miRNA:   3'- -AGCUCg---GGCUGuGGcCUCGGGU--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 + 29206 0.67 0.438953
Target:  5'- -gGAGCCCGAC-UCGGAGCUg----- -3'
miRNA:   3'- agCUCGGGCUGuGGCCUCGGgucuuc -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 + 38657 0.67 0.438953
Target:  5'- gCGAGCCCGcucACGCgGGAucacGCCCuGGc- -3'
miRNA:   3'- aGCUCGGGC---UGUGgCCU----CGGGuCUuc -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 + 12107 0.68 0.375536
Target:  5'- aUCaAGCCCcACACCuGGGGCuacggaggccaCCAGAAGg -3'
miRNA:   3'- -AGcUCGGGcUGUGG-CCUCG-----------GGUCUUC- -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 + 13361 0.68 0.366149
Target:  5'- gUCGAGCgcaugauCCGGCGUCGGAuCCCAGAu- -3'
miRNA:   3'- -AGCUCG-------GGCUGUGGCCUcGGGUCUuc -5'
7232 3' -59.4 NC_001900.1 + 25414 0.68 0.349499
Target:  5'- -aGAGCCUcuACGCCGGuAGCCCAacugcgcGAGGu -3'
miRNA:   3'- agCUCGGGc-UGUGGCC-UCGGGU-------CUUC- -5'
7232 3' -59.4 NC_001900.1 + 4575 0.68 0.342184
Target:  5'- aUCGAGCgCCGguACACCGucGGCCUGGAGc -3'
miRNA:   3'- -AGCUCG-GGC--UGUGGCc-UCGGGUCUUc -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.