miRNA display CGI


Results 21 - 35 of 35 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
11601 3' -58.3 NC_003085.1 + 32143 0.68 0.360983
Target:  5'- gGCGGCuggugGCGCGGUGgguuACGGCGUCGg--- -3'
miRNA:   3'- -UGCCG-----CGCGCCGC----UGUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 37804 0.68 0.352468
Target:  5'- uCGGCGCGCagugaGGUGuCuauGCGUCGUGUc -3'
miRNA:   3'- uGCCGCGCG-----CCGCuGu--CGUAGUACAa -5'
11601 3' -58.3 NC_003085.1 + 42748 0.69 0.296903
Target:  5'- uGCGG-GCGCGGUGgACGGCAUCc---- -3'
miRNA:   3'- -UGCCgCGCGCCGC-UGUCGUAGuacaa -5'
11601 3' -58.3 NC_003085.1 + 47988 0.69 0.296903
Target:  5'- gACGGUGacggGCGGCGACuuggGGUGUCAUGc- -3'
miRNA:   3'- -UGCCGCg---CGCCGCUG----UCGUAGUACaa -5'
11601 3' -58.3 NC_003085.1 + 8800 0.7 0.282329
Target:  5'- gGCGGCuccgcgagguuGCGCGGCGcagcCAGCGUCAg--- -3'
miRNA:   3'- -UGCCG-----------CGCGCCGCu---GUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 12346 0.71 0.254892
Target:  5'- cCGGCGUGaCGGUGcCAGCAcUCGUGa- -3'
miRNA:   3'- uGCCGCGC-GCCGCuGUCGU-AGUACaa -5'
11601 3' -58.3 NC_003085.1 + 8544 0.71 0.229681
Target:  5'- uCGGCGCGCGGCGAgcucgucaCGGCAggUCuUGa- -3'
miRNA:   3'- uGCCGCGCGCCGCU--------GUCGU--AGuACaa -5'
11601 3' -58.3 NC_003085.1 + 19701 0.71 0.229681
Target:  5'- -aGGCGCGCGGCGGCAucuGCAccuUCGa--- -3'
miRNA:   3'- ugCCGCGCGCCGCUGU---CGU---AGUacaa -5'
11601 3' -58.3 NC_003085.1 + 39665 0.71 0.223716
Target:  5'- aGCGGCGCGCGcGUGAgCAGCAgCAg--- -3'
miRNA:   3'- -UGCCGCGCGC-CGCU-GUCGUaGUacaa -5'
11601 3' -58.3 NC_003085.1 + 9511 0.72 0.212182
Target:  5'- gGCGGCGCGCGGCG--GGuCAUCGg--- -3'
miRNA:   3'- -UGCCGCGCGCCGCugUC-GUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 2789 0.72 0.206609
Target:  5'- gGCGGCGCuccagGCGGCGGCgaagcgccucGGCAUCAcUGg- -3'
miRNA:   3'- -UGCCGCG-----CGCCGCUG----------UCGUAGU-ACaa -5'
11601 3' -58.3 NC_003085.1 + 34724 0.74 0.141062
Target:  5'- gGCGGCGCGUGGCauaccGAUGGCAUCGc--- -3'
miRNA:   3'- -UGCCGCGCGCCG-----CUGUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 19059 0.75 0.122673
Target:  5'- cGCGGCGCGCGGCGG-AGCAggcgCcgGg- -3'
miRNA:   3'- -UGCCGCGCGCCGCUgUCGUa---GuaCaa -5'
11601 3' -58.3 NC_003085.1 + 34509 0.8 0.054928
Target:  5'- cACGgacGCGUGCGGCGACAGCGUCAg--- -3'
miRNA:   3'- -UGC---CGCGCGCCGCUGUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 38861 1.04 0.000797
Target:  5'- gACGGCGCGCGGCGACAGCAUCAUGUUc -3'
miRNA:   3'- -UGCCGCGCGCCGCUGUCGUAGUACAA- -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.