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
28001 3' -54.7 NC_005887.1 + 40736 0.66 0.64061
Target:  5'- aGCUCGAAUGaCagGUAGUGCguuGGCGGu -3'
miRNA:   3'- -CGAGCUUGCcGaaCGUCACG---UCGCUu -5'
28001 3' -54.7 NC_005887.1 + 27550 0.66 0.64061
Target:  5'- cGCUCcaucAUGGUgUGCAGcacGCAGCGGAa -3'
miRNA:   3'- -CGAGcu--UGCCGaACGUCa--CGUCGCUU- -5'
28001 3' -54.7 NC_005887.1 + 16470 0.66 0.62915
Target:  5'- cGCUCGAccgcGCGGCaggauccgGCGGgcugGuCGGCGAu -3'
miRNA:   3'- -CGAGCU----UGCCGaa------CGUCa---C-GUCGCUu -5'
28001 3' -54.7 NC_005887.1 + 38094 0.66 0.617692
Target:  5'- uGCUCGu-CGcGCUUGCcGUGCuccaucGCGAGc -3'
miRNA:   3'- -CGAGCuuGC-CGAACGuCACGu-----CGCUU- -5'
28001 3' -54.7 NC_005887.1 + 15762 0.66 0.603962
Target:  5'- aGCUcgCGAACGGCgccgucuacaaGCAGgaggacgacgGCAGCGAc -3'
miRNA:   3'- -CGA--GCUUGCCGaa---------CGUCa---------CGUCGCUu -5'
28001 3' -54.7 NC_005887.1 + 31388 0.66 0.594829
Target:  5'- cGCUCGGcguaGCGGUgcgUGCcGUGguuCAGCGGGg -3'
miRNA:   3'- -CGAGCU----UGCCGa--ACGuCAC---GUCGCUU- -5'
28001 3' -54.7 NC_005887.1 + 1497 0.66 0.594829
Target:  5'- cGCUCGcGCGGCgcgGCcGUGCGGa--- -3'
miRNA:   3'- -CGAGCuUGCCGaa-CGuCACGUCgcuu -5'
28001 3' -54.7 NC_005887.1 + 1927 0.68 0.516364
Target:  5'- aGC-CGGGCGGCgucaUGC-GUGaCGGCGAu -3'
miRNA:   3'- -CGaGCUUGCCGa---ACGuCAC-GUCGCUu -5'
28001 3' -54.7 NC_005887.1 + 443 0.68 0.516364
Target:  5'- cGCUCGAACccucuGGCgcgUGUGGUGCGGgcaUGAGc -3'
miRNA:   3'- -CGAGCUUG-----CCGa--ACGUCACGUC---GCUU- -5'
28001 3' -54.7 NC_005887.1 + 15393 0.69 0.467106
Target:  5'- cGC-CGAACGGCcUGCAGgaucuguggggccaGCAGUGGu -3'
miRNA:   3'- -CGaGCUUGCCGaACGUCa-------------CGUCGCUu -5'
28001 3' -54.7 NC_005887.1 + 41504 0.69 0.462936
Target:  5'- gGCUCGAACGGCaaGUcgacGGUGCucGGCa-- -3'
miRNA:   3'- -CGAGCUUGCCGaaCG----UCACG--UCGcuu -5'
28001 3' -54.7 NC_005887.1 + 26881 0.69 0.462936
Target:  5'- aGCUCGAACGcGuCUUggugcGCGGUcaucGCGGCGAc -3'
miRNA:   3'- -CGAGCUUGC-C-GAA-----CGUCA----CGUCGCUu -5'
28001 3' -54.7 NC_005887.1 + 20954 0.69 0.462936
Target:  5'- uGUUaCGAAU-GCcgGCGGUGCAGCGAAa -3'
miRNA:   3'- -CGA-GCUUGcCGaaCGUCACGUCGCUU- -5'
28001 3' -54.7 NC_005887.1 + 25500 0.69 0.442385
Target:  5'- gGCUCGGACgauGGCgcgGCGGgugGCGGCa-- -3'
miRNA:   3'- -CGAGCUUG---CCGaa-CGUCa--CGUCGcuu -5'
28001 3' -54.7 NC_005887.1 + 34270 0.69 0.432304
Target:  5'- cGCUC--GCGGCUUGCGcaugccgucgccGUGCGGCuGAc -3'
miRNA:   3'- -CGAGcuUGCCGAACGU------------CACGUCG-CUu -5'
28001 3' -54.7 NC_005887.1 + 41005 0.69 0.432304
Target:  5'- cGCUCGAgcgucucgcccuGCGGCUUGUAGUGgAauuCGAu -3'
miRNA:   3'- -CGAGCU------------UGCCGAACGUCACgUc--GCUu -5'
28001 3' -54.7 NC_005887.1 + 39024 0.69 0.422359
Target:  5'- -gUCGAcgGCGGCUUGCugcggAGU-CAGCGAAc -3'
miRNA:   3'- cgAGCU--UGCCGAACG-----UCAcGUCGCUU- -5'
28001 3' -54.7 NC_005887.1 + 27351 0.7 0.393368
Target:  5'- aGCUCGGGCGGCacgccUGCGGccUGC-GCGGc -3'
miRNA:   3'- -CGAGCUUGCCGa----ACGUC--ACGuCGCUu -5'
28001 3' -54.7 NC_005887.1 + 7014 0.72 0.312897
Target:  5'- aGCUCGuggccggccgccGCGGCgcgcgGCAGUGgAGCGAu -3'
miRNA:   3'- -CGAGCu-----------UGCCGaa---CGUCACgUCGCUu -5'
28001 3' -54.7 NC_005887.1 + 34696 0.72 0.306521
Target:  5'- aGCagCGGGCGGCcgucgucgcgcUUGCGGUGCgcGGCGAu -3'
miRNA:   3'- -CGa-GCUUGCCG-----------AACGUCACG--UCGCUu -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.