miRNA display CGI


Results 1 - 20 of 32 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
21868 3' -51.2 NC_004902.1 + 6262 0.73 0.441702
Target:  5'- cGGCGAUUGAGCucgccAAGGaUGCgaacaACCAGUACc -3'
miRNA:   3'- -CCGUUAAUUCG-----UUCC-GCG-----UGGUCGUG- -5'
21868 3' -51.2 NC_004902.1 + 42179 0.66 0.84852
Target:  5'- -aCAAUUuguGGCGGGGUcugugaaaucguuGCACUGGCGCu -3'
miRNA:   3'- ccGUUAAu--UCGUUCCG-------------CGUGGUCGUG- -5'
21868 3' -51.2 NC_004902.1 + 38231 0.66 0.830772
Target:  5'- cGGCGcgcugAAcGCAcucguugucGCGCACCAGCACc -3'
miRNA:   3'- -CCGUuaa--UU-CGUuc-------CGCGUGGUCGUG- -5'
21868 3' -51.2 NC_004902.1 + 30276 0.66 0.821083
Target:  5'- aGGCuuugAAGUuuGGCuGCACgCAGCAa -3'
miRNA:   3'- -CCGuuaaUUCGuuCCG-CGUG-GUCGUg -5'
21868 3' -51.2 NC_004902.1 + 5540 0.67 0.780201
Target:  5'- cGGCcg--AAGUGcAGGCuGCccGCCAGCGCg -3'
miRNA:   3'- -CCGuuaaUUCGU-UCCG-CG--UGGUCGUG- -5'
21868 3' -51.2 NC_004902.1 + 21966 0.67 0.769513
Target:  5'- uGGCAAcagacuUUGAGCucAGGuCGC-CCGGCGu -3'
miRNA:   3'- -CCGUU------AAUUCGu-UCC-GCGuGGUCGUg -5'
21868 3' -51.2 NC_004902.1 + 12372 0.67 0.769513
Target:  5'- uGCAGcUGGGCuuAGGGCGUAUCgggaGGCGCu -3'
miRNA:   3'- cCGUUaAUUCG--UUCCGCGUGG----UCGUG- -5'
21868 3' -51.2 NC_004902.1 + 7009 0.67 0.758664
Target:  5'- uGGCAccgaUGAGUggGGaGCGCCuaAGCAUg -3'
miRNA:   3'- -CCGUua--AUUCGuuCCgCGUGG--UCGUG- -5'
21868 3' -51.2 NC_004902.1 + 1064 0.68 0.702499
Target:  5'- aGGCAuc----CAAGGCGUgaGCUGGCACa -3'
miRNA:   3'- -CCGUuaauucGUUCCGCG--UGGUCGUG- -5'
21868 3' -51.2 NC_004902.1 + 24324 0.68 0.699051
Target:  5'- aGGCuggc-AGCAAGGCGCagcgugccgccaagGCCgacAGCGCu -3'
miRNA:   3'- -CCGuuaauUCGUUCCGCG--------------UGG---UCGUG- -5'
21868 3' -51.2 NC_004902.1 + 3942 0.69 0.654915
Target:  5'- cGCGAUUGcAGCAgaggcccAGGC-CGCCAGgGCg -3'
miRNA:   3'- cCGUUAAU-UCGU-------UCCGcGUGGUCgUG- -5'
21868 3' -51.2 NC_004902.1 + 41592 0.69 0.632673
Target:  5'- aGGCucu---GUAAGGCGCugUAuGCGCg -3'
miRNA:   3'- -CCGuuaauuCGUUCCGCGugGU-CGUG- -5'
21868 3' -51.2 NC_004902.1 + 42603 0.72 0.506171
Target:  5'- aGGCAcAUUgaGAGCAGGGCaaCGCCAGCc- -3'
miRNA:   3'- -CCGU-UAA--UUCGUUCCGc-GUGGUCGug -5'
21868 3' -51.2 NC_004902.1 + 39377 0.69 0.656084
Target:  5'- uGGCGu----GCAggGGGUGUGCUGGCACa -3'
miRNA:   3'- -CCGUuaauuCGU--UCCGCGUGGUCGUG- -5'
21868 3' -51.2 NC_004902.1 + 24594 0.69 0.644385
Target:  5'- cGGCGAguacuGGCAAccuGGCGUACC-GCAg -3'
miRNA:   3'- -CCGUUaau--UCGUU---CCGCGUGGuCGUg -5'
21868 3' -51.2 NC_004902.1 + 8377 0.71 0.551302
Target:  5'- uGGCGguguuGUUAAGgaAAGGCGCGCCcGcCGCa -3'
miRNA:   3'- -CCGU-----UAAUUCg-UUCCGCGUGGuC-GUG- -5'
21868 3' -51.2 NC_004902.1 + 36656 0.72 0.484199
Target:  5'- uGGCAGUagcuacuGGCGAcGGCGC-CaCGGCACa -3'
miRNA:   3'- -CCGUUAau-----UCGUU-CCGCGuG-GUCGUG- -5'
21868 3' -51.2 NC_004902.1 + 5820 0.73 0.441702
Target:  5'- aGGCGGUUcGGGguGGucaGUGCACCAGCAg -3'
miRNA:   3'- -CCGUUAA-UUCguUC---CGCGUGGUCGUg -5'
21868 3' -51.2 NC_004902.1 + 35705 0.78 0.224848
Target:  5'- cGGCA---GAGCugccAGaGUGCACCAGCACg -3'
miRNA:   3'- -CCGUuaaUUCGu---UC-CGCGUGGUCGUG- -5'
21868 3' -51.2 NC_004902.1 + 30689 0.66 0.849429
Target:  5'- aGGCuuUgacAAGCAAGGCGguuGCUGGCGa -3'
miRNA:   3'- -CCGuuAa--UUCGUUCCGCg--UGGUCGUg -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.