miRNA display CGI


Results 1 - 20 of 25 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
22414 3' -58.9 NC_005056.1 + 18778 0.66 0.390503
Target:  5'- cUGGCGcGCCugCuuGCGGaguGCGGCCa- -3'
miRNA:   3'- uACCGC-CGGugG--UGCCgu-UGUUGGcc -5'
22414 3' -58.9 NC_005056.1 + 5539 0.66 0.390503
Target:  5'- gGUGGCGcuuGCgGCCAUGcGCGcccACGcuGCCGGu -3'
miRNA:   3'- -UACCGC---CGgUGGUGC-CGU---UGU--UGGCC- -5'
22414 3' -58.9 NC_005056.1 + 5962 0.66 0.363586
Target:  5'- -cGGCGuGCCGCCcUGGCGcggggcGCAuUCGGu -3'
miRNA:   3'- uaCCGC-CGGUGGuGCCGU------UGUuGGCC- -5'
22414 3' -58.9 NC_005056.1 + 20418 0.66 0.354904
Target:  5'- cUGGCGGUCAagcuguguCCcCGGCGcaguACcACCGGu -3'
miRNA:   3'- uACCGCCGGU--------GGuGCCGU----UGuUGGCC- -5'
22414 3' -58.9 NC_005056.1 + 1687 0.66 0.345524
Target:  5'- ---cCGGCCACCAcCGGCGgugccaguaccacGCAuCCGGc -3'
miRNA:   3'- uaccGCCGGUGGU-GCCGU-------------UGUuGGCC- -5'
22414 3' -58.9 NC_005056.1 + 7458 0.67 0.321654
Target:  5'- cUGGCG--UACCGCuGGCGGCGuACCGGc -3'
miRNA:   3'- uACCGCcgGUGGUG-CCGUUGU-UGGCC- -5'
22414 3' -58.9 NC_005056.1 + 12747 0.67 0.305924
Target:  5'- -gGGCGGCaAUCGCGGCcauAACGaaGCCGu -3'
miRNA:   3'- uaCCGCCGgUGGUGCCG---UUGU--UGGCc -5'
22414 3' -58.9 NC_005056.1 + 9941 0.67 0.298282
Target:  5'- -gGGCGGgaCGaugCGCGGCAACAucgcgcauACCGGc -3'
miRNA:   3'- uaCCGCCg-GUg--GUGCCGUUGU--------UGGCC- -5'
22414 3' -58.9 NC_005056.1 + 11395 0.68 0.269197
Target:  5'- -cGGCGGCaACUucaaGCGGUGAUgAGCCGGu -3'
miRNA:   3'- uaCCGCCGgUGG----UGCCGUUG-UUGGCC- -5'
22414 3' -58.9 NC_005056.1 + 4015 0.69 0.248917
Target:  5'- -cGGUGGCUuuGCUGCGGC-GCuGCUGGg -3'
miRNA:   3'- uaCCGCCGG--UGGUGCCGuUGuUGGCC- -5'
22414 3' -58.9 NC_005056.1 + 10024 0.69 0.242443
Target:  5'- -cGGCGaCaGCgGCGGC-ACAACCGGg -3'
miRNA:   3'- uaCCGCcGgUGgUGCCGuUGUUGGCC- -5'
22414 3' -58.9 NC_005056.1 + 7871 0.69 0.241803
Target:  5'- -aGcGCGGuaaaaauCCACC-CGGCAGCGACCa- -3'
miRNA:   3'- uaC-CGCC-------GGUGGuGCCGUUGUUGGcc -5'
22414 3' -58.9 NC_005056.1 + 6047 0.69 0.236109
Target:  5'- -cGGUGGUCAucCCGCaaccggcaGGCGACgAGCCGGu -3'
miRNA:   3'- uaCCGCCGGU--GGUG--------CCGUUG-UUGGCC- -5'
22414 3' -58.9 NC_005056.1 + 18750 0.7 0.2065
Target:  5'- -cGGUGacaauacuGCCGCCuCGGCGgaugauGCAGCCGGu -3'
miRNA:   3'- uaCCGC--------CGGUGGuGCCGU------UGUUGGCC- -5'
22414 3' -58.9 NC_005056.1 + 5859 0.7 0.195584
Target:  5'- -gGGUGGCCGCuUugGGCuGCGgcuCCGGc -3'
miRNA:   3'- uaCCGCCGGUG-GugCCGuUGUu--GGCC- -5'
22414 3' -58.9 NC_005056.1 + 11075 0.7 0.195584
Target:  5'- gAUGGCGGCagaCugCACGGUcACGcggucggccACCGGc -3'
miRNA:   3'- -UACCGCCG---GugGUGCCGuUGU---------UGGCC- -5'
22414 3' -58.9 NC_005056.1 + 18820 0.7 0.195584
Target:  5'- gAUGcuGCGGCUAUUcagGCGGCAACG-CCGGu -3'
miRNA:   3'- -UAC--CGCCGGUGG---UGCCGUUGUuGGCC- -5'
22414 3' -58.9 NC_005056.1 + 15903 0.7 0.190318
Target:  5'- uUGGCauGGUCugCACGGCcAGCGAUgCGGa -3'
miRNA:   3'- uACCG--CCGGugGUGCCG-UUGUUG-GCC- -5'
22414 3' -58.9 NC_005056.1 + 19814 0.7 0.185176
Target:  5'- cGUGGUGGCCGCCAUuGUc---GCCGGg -3'
miRNA:   3'- -UACCGCCGGUGGUGcCGuuguUGGCC- -5'
22414 3' -58.9 NC_005056.1 + 11496 0.7 0.185176
Target:  5'- --cGCccacGCCAgCCACGGCAGCAgauuuGCCGGg -3'
miRNA:   3'- uacCGc---CGGU-GGUGCCGUUGU-----UGGCC- -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.