miRNA display CGI


Results 1 - 16 of 16 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
18542 3' -57 NC_004682.1 + 48380 0.66 0.607433
Target:  5'- -gGCACCUGUggcaccgguaucaccCUUGGGACcuuGCGGCc -3'
miRNA:   3'- ugCGUGGACAa--------------GGACUCUGuc-CGCCG- -5'
18542 3' -57 NC_004682.1 + 7693 0.66 0.562772
Target:  5'- gACGacCGCCUGgaCCgGAG-CGuGGCGGCu -3'
miRNA:   3'- -UGC--GUGGACaaGGaCUCuGU-CCGCCG- -5'
18542 3' -57 NC_004682.1 + 13954 0.67 0.552
Target:  5'- -aGCGgCUGagcaagCCgauAGGCGGGCGGCg -3'
miRNA:   3'- ugCGUgGACaa----GGac-UCUGUCCGCCG- -5'
18542 3' -57 NC_004682.1 + 24488 0.67 0.552
Target:  5'- uGCGCGCCgacag--GGGaACAGGCGGUc -3'
miRNA:   3'- -UGCGUGGacaaggaCUC-UGUCCGCCG- -5'
18542 3' -57 NC_004682.1 + 43268 0.67 0.550927
Target:  5'- aGCGCACUUGUccggCuCUGGGuccgggucaaagcGCucGGCGGCg -3'
miRNA:   3'- -UGCGUGGACAa---G-GACUC-------------UGu-CCGCCG- -5'
18542 3' -57 NC_004682.1 + 45213 0.67 0.520091
Target:  5'- aACGCACCgucagUCCgGucAUGGGCGGUa -3'
miRNA:   3'- -UGCGUGGaca--AGGaCucUGUCCGCCG- -5'
18542 3' -57 NC_004682.1 + 50257 0.68 0.487907
Target:  5'- -aGCACCUGUcUCCguauGGCGGGCcagucgucggguaGGCg -3'
miRNA:   3'- ugCGUGGACA-AGGacu-CUGUCCG-------------CCG- -5'
18542 3' -57 NC_004682.1 + 15199 0.68 0.478738
Target:  5'- -aGCACCUGUUCaauugCUGGGucuCGGGCuGGa -3'
miRNA:   3'- ugCGUGGACAAG-----GACUCu--GUCCG-CCg -5'
18542 3' -57 NC_004682.1 + 13193 0.68 0.468651
Target:  5'- cACGCAgauCCcGUUCCacGAccGGCGGGCGGUc -3'
miRNA:   3'- -UGCGU---GGaCAAGGa-CU--CUGUCCGCCG- -5'
18542 3' -57 NC_004682.1 + 2925 0.68 0.462652
Target:  5'- cGCGUgcggcaagggcaugaACCUGaucgacUUCUGGGGCgcGGGCGGCg -3'
miRNA:   3'- -UGCG---------------UGGACa-----AGGACUCUG--UCCGCCG- -5'
18542 3' -57 NC_004682.1 + 21826 0.68 0.458674
Target:  5'- cCGCugCUGgagaCCagcGAGACGGGCcugGGCg -3'
miRNA:   3'- uGCGugGACaa--GGa--CUCUGUCCG---CCG- -5'
18542 3' -57 NC_004682.1 + 12134 0.69 0.429445
Target:  5'- aACGC-CCUGUcgcUCCUGGuGAaCA-GCGGCa -3'
miRNA:   3'- -UGCGuGGACA---AGGACU-CU-GUcCGCCG- -5'
18542 3' -57 NC_004682.1 + 7814 0.7 0.365742
Target:  5'- cGCGUACCaGgacaUCCUGucGGGCaAGGCGGUc -3'
miRNA:   3'- -UGCGUGGaCa---AGGAC--UCUG-UCCGCCG- -5'
18542 3' -57 NC_004682.1 + 34148 0.72 0.275306
Target:  5'- -aGCGCCUGgaagCCgagaagcucguucaGAGACAGGuCGGCu -3'
miRNA:   3'- ugCGUGGACaa--GGa-------------CUCUGUCC-GCCG- -5'
18542 3' -57 NC_004682.1 + 16129 0.75 0.182
Target:  5'- gGCGCACCggcuggugacucgGUUCCUGAuGCGGGCGa- -3'
miRNA:   3'- -UGCGUGGa------------CAAGGACUcUGUCCGCcg -5'
18542 3' -57 NC_004682.1 + 46662 1.11 0.000433
Target:  5'- cACGCACCUGUUCCUGAGACAGGCGGCu -3'
miRNA:   3'- -UGCGUGGACAAGGACUCUGUCCGCCG- -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.