miRNA display CGI


Results 1 - 20 of 31 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
18653 5' -52.8 NC_004682.1 + 9771 0.66 0.818129
Target:  5'- uACGGGGGCaGCcc-GGUGuACGC-GGCa -3'
miRNA:   3'- -UGUUCCCGcUGuuuCCAC-UGUGaCCG- -5'
18653 5' -52.8 NC_004682.1 + 26233 0.66 0.818129
Target:  5'- --cGGGGCGACGAGGcaGAUggucuGCUGGa -3'
miRNA:   3'- uguUCCCGCUGUUUCcaCUG-----UGACCg -5'
18653 5' -52.8 NC_004682.1 + 27532 0.66 0.818129
Target:  5'- gACGGcGGCGugauagucgcuACGgcGGcGACACUGGCg -3'
miRNA:   3'- -UGUUcCCGC-----------UGUuuCCaCUGUGACCG- -5'
18653 5' -52.8 NC_004682.1 + 16168 0.66 0.818129
Target:  5'- uCGAuGcGCGGC-GAGGUcGGCAUUGGCg -3'
miRNA:   3'- uGUUcC-CGCUGuUUCCA-CUGUGACCG- -5'
18653 5' -52.8 NC_004682.1 + 4090 0.66 0.808488
Target:  5'- uGCGAGGGCuccucccuuugGGCAGGGGccgcuCGCaUGGCu -3'
miRNA:   3'- -UGUUCCCG-----------CUGUUUCCacu--GUG-ACCG- -5'
18653 5' -52.8 NC_004682.1 + 20572 0.66 0.808488
Target:  5'- ----cGGCGACAugguccuucgGGGcGUGGuCGCUGGCg -3'
miRNA:   3'- uguucCCGCUGU----------UUC-CACU-GUGACCG- -5'
18653 5' -52.8 NC_004682.1 + 36938 0.66 0.805557
Target:  5'- ---cGGGCGGCGAAGaucgucgccucgcaGUGGC-CUGGg -3'
miRNA:   3'- uguuCCCGCUGUUUC--------------CACUGuGACCg -5'
18653 5' -52.8 NC_004682.1 + 2688 0.66 0.79266
Target:  5'- -gAAGGucGCGACGacGuucuacgugaucgugGGGUGACGCaUGGCg -3'
miRNA:   3'- ugUUCC--CGCUGU--U---------------UCCACUGUG-ACCG- -5'
18653 5' -52.8 NC_004682.1 + 31413 0.67 0.768083
Target:  5'- gGCAAGGGaauacaagaCGACGAAGGcGcACAuCUGGa -3'
miRNA:   3'- -UGUUCCC---------GCUGUUUCCaC-UGU-GACCg -5'
18653 5' -52.8 NC_004682.1 + 12033 0.67 0.764947
Target:  5'- uCAAGGGCuaccuggccgagacGACcAAGGUcGuguCGCUGGCc -3'
miRNA:   3'- uGUUCCCG--------------CUGuUUCCA-Cu--GUGACCG- -5'
18653 5' -52.8 NC_004682.1 + 2932 0.67 0.757581
Target:  5'- gGCAAGGGCaugaaccugaucGACuucuGG-GGCGCgGGCg -3'
miRNA:   3'- -UGUUCCCG------------CUGuuu-CCaCUGUGaCCG- -5'
18653 5' -52.8 NC_004682.1 + 38909 0.67 0.757581
Target:  5'- ---cGGGCGGCGAcGGaacGAUACcGGCg -3'
miRNA:   3'- uguuCCCGCUGUUuCCa--CUGUGaCCG- -5'
18653 5' -52.8 NC_004682.1 + 36740 0.68 0.703288
Target:  5'- uACAAGGGCaGCuaccGGUacuCGCUGGCc -3'
miRNA:   3'- -UGUUCCCGcUGuuu-CCAcu-GUGACCG- -5'
18653 5' -52.8 NC_004682.1 + 46468 0.68 0.692159
Target:  5'- uACcGGGGCGACAAGGaGcGcGCugcuCUGGCu -3'
miRNA:   3'- -UGuUCCCGCUGUUUC-CaC-UGu---GACCG- -5'
18653 5' -52.8 NC_004682.1 + 24142 0.68 0.679847
Target:  5'- aACAAGgucgccaacGGUGACcgcGAGGUGAUgggcaaguacaacGCUGGCg -3'
miRNA:   3'- -UGUUC---------CCGCUGu--UUCCACUG-------------UGACCG- -5'
18653 5' -52.8 NC_004682.1 + 5944 0.69 0.647151
Target:  5'- gGCAAGGGCGA--------GCGCUGGCu -3'
miRNA:   3'- -UGUUCCCGCUguuuccacUGUGACCG- -5'
18653 5' -52.8 NC_004682.1 + 47397 0.69 0.624514
Target:  5'- uACGAGGagacGCGGCAgcggcuggccAAGGacccgcuaguccUGGCGCUGGCc -3'
miRNA:   3'- -UGUUCC----CGCUGU----------UUCC------------ACUGUGACCG- -5'
18653 5' -52.8 NC_004682.1 + 33718 0.7 0.601905
Target:  5'- uCAAGGGCGGCAccGGGUucGACGCUccguGGa -3'
miRNA:   3'- uGUUCCCGCUGUu-UCCA--CUGUGA----CCg -5'
18653 5' -52.8 NC_004682.1 + 33542 0.71 0.535027
Target:  5'- gGCAAcGGCGGCAGccgggguGGUGGCACccagaGGCa -3'
miRNA:   3'- -UGUUcCCGCUGUUu------CCACUGUGa----CCG- -5'
18653 5' -52.8 NC_004682.1 + 16675 0.71 0.52411
Target:  5'- cGCucGGGCGGCAgcGGUGAUg--GGCc -3'
miRNA:   3'- -UGuuCCCGCUGUuuCCACUGugaCCG- -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.