miRNA display CGI


Results 1 - 20 of 22 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
21216 5' -52.4 NC_004778.3 + 90371 0.66 0.974338
Target:  5'- aACCGCaGCGaGGAcuucaCCGAGUGGAUg -3'
miRNA:   3'- -UGGUGcCGCgCUUuaa--GGCUCAUCUG- -5'
21216 5' -52.4 NC_004778.3 + 105151 0.66 0.971815
Target:  5'- cGCCGCGGCGCGcuuguuggcuccGuuucaaaaaaauauUUCCGcauuGUGGACa -3'
miRNA:   3'- -UGGUGCCGCGC------------Uuu------------AAGGCu---CAUCUG- -5'
21216 5' -52.4 NC_004778.3 + 18158 0.66 0.971815
Target:  5'- cACCACGGCggccaaggcgcuaacGCGcAuugcuaucaaagccAGUUCCGuGGUGGGCa -3'
miRNA:   3'- -UGGUGCCG---------------CGC-U--------------UUAAGGC-UCAUCUG- -5'
21216 5' -52.4 NC_004778.3 + 111982 0.66 0.971524
Target:  5'- gGCCAgGcuGCGCGAGAUUUCGcAGUuGAa -3'
miRNA:   3'- -UGGUgC--CGCGCUUUAAGGC-UCAuCUg -5'
21216 5' -52.4 NC_004778.3 + 46686 0.66 0.971524
Target:  5'- cGCCGCuucGGCGuCGGAAUUCgcggCGGGgGGACc -3'
miRNA:   3'- -UGGUG---CCGC-GCUUUAAG----GCUCaUCUG- -5'
21216 5' -52.4 NC_004778.3 + 46341 0.66 0.961763
Target:  5'- gAUCGCGGCGCGcAAgcuggUCGAGUcgcuacAGGCc -3'
miRNA:   3'- -UGGUGCCGCGCuUUaa---GGCUCA------UCUG- -5'
21216 5' -52.4 NC_004778.3 + 33442 0.67 0.958048
Target:  5'- uGCgGCGGCGCGAAAagcgcggccgUCCGcacGgcGGCg -3'
miRNA:   3'- -UGgUGCCGCGCUUUa---------AGGCu--CauCUG- -5'
21216 5' -52.4 NC_004778.3 + 73458 0.67 0.954093
Target:  5'- -aCGCGGCGCcacugUCCGAGcgcGACa -3'
miRNA:   3'- ugGUGCCGCGcuuuaAGGCUCau-CUG- -5'
21216 5' -52.4 NC_004778.3 + 56967 0.67 0.945447
Target:  5'- uGCCGCGGCGUGAAca--CGGcGcUGGACc -3'
miRNA:   3'- -UGGUGCCGCGCUUuaagGCU-C-AUCUG- -5'
21216 5' -52.4 NC_004778.3 + 83985 0.67 0.945447
Target:  5'- gACCGCGGCaGCGAG-UUCCGccuUAGcACu -3'
miRNA:   3'- -UGGUGCCG-CGCUUuAAGGCuc-AUC-UG- -5'
21216 5' -52.4 NC_004778.3 + 24305 0.68 0.930587
Target:  5'- cGCCGCGGCGCccAAUUCUauGUAGcCa -3'
miRNA:   3'- -UGGUGCCGCGcuUUAAGGcuCAUCuG- -5'
21216 5' -52.4 NC_004778.3 + 97298 0.68 0.919401
Target:  5'- gGCCGCGGCGCauuGGAGcgCCGucGUgcAGGCg -3'
miRNA:   3'- -UGGUGCCGCG---CUUUaaGGCu-CA--UCUG- -5'
21216 5' -52.4 NC_004778.3 + 59315 0.69 0.886996
Target:  5'- -gCACGGCGCGAuGUUuuGGGggucGGCc -3'
miRNA:   3'- ugGUGCCGCGCUuUAAggCUCau--CUG- -5'
21216 5' -52.4 NC_004778.3 + 34194 0.69 0.885571
Target:  5'- cGCCGCGGCGCaccaugcCCGAGUccgcGGCg -3'
miRNA:   3'- -UGGUGCCGCGcuuuaa-GGCUCAu---CUG- -5'
21216 5' -52.4 NC_004778.3 + 44689 0.69 0.879776
Target:  5'- uGCCAgGuaGCGAGucuaUCGAGUGGACg -3'
miRNA:   3'- -UGGUgCcgCGCUUuaa-GGCUCAUCUG- -5'
21216 5' -52.4 NC_004778.3 + 30528 0.69 0.879776
Target:  5'- gACC-CGGCGCG----UCCGuacGUGGGCg -3'
miRNA:   3'- -UGGuGCCGCGCuuuaAGGCu--CAUCUG- -5'
21216 5' -52.4 NC_004778.3 + 120828 0.7 0.872319
Target:  5'- cACCACGGCGUcAAAggUCCGGuUGGAg -3'
miRNA:   3'- -UGGUGCCGCGcUUUa-AGGCUcAUCUg -5'
21216 5' -52.4 NC_004778.3 + 70174 0.71 0.786236
Target:  5'- cGCCGCacgguGCGCGAuuUUCCGgaaaauuucacGGUGGACg -3'
miRNA:   3'- -UGGUGc----CGCGCUuuAAGGC-----------UCAUCUG- -5'
21216 5' -52.4 NC_004778.3 + 100243 0.71 0.786236
Target:  5'- uGCCGCGuGCGCGAuuggcugCCGAGc-GACg -3'
miRNA:   3'- -UGGUGC-CGCGCUuuaa---GGCUCauCUG- -5'
21216 5' -52.4 NC_004778.3 + 65292 0.73 0.716636
Target:  5'- gGCCACgGGCGCGAcgcgCUGAGU-GACc -3'
miRNA:   3'- -UGGUG-CCGCGCUuuaaGGCUCAuCUG- -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.