miRNA display CGI


Results 1 - 19 of 19 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
24967 3' -54.1 NC_005284.1 + 7619 0.66 0.78538
Target:  5'- -uUCGGCGCCuGAUGuacGCGccggucguacAGCGGGu -3'
miRNA:   3'- cuAGCCGCGG-UUACuu-CGC----------UUGCCCu -5'
24967 3' -54.1 NC_005284.1 + 28805 0.66 0.78538
Target:  5'- -uUCGGuCGCCucauucucGUGAggAGCGGuCGGGGa -3'
miRNA:   3'- cuAGCC-GCGGu-------UACU--UCGCUuGCCCU- -5'
24967 3' -54.1 NC_005284.1 + 51487 0.66 0.743201
Target:  5'- uGAUCGcGCGCUuuggucaAAUGggG-GAcacGCGGGAc -3'
miRNA:   3'- -CUAGC-CGCGG-------UUACuuCgCU---UGCCCU- -5'
24967 3' -54.1 NC_005284.1 + 49723 0.67 0.733655
Target:  5'- cGAUCGGCGUCGcauucGCGAGCGugauGGAu -3'
miRNA:   3'- -CUAGCCGCGGUuacuuCGCUUGC----CCU- -5'
24967 3' -54.1 NC_005284.1 + 47722 0.67 0.722951
Target:  5'- cGAUCGGCGUCGGUGAA-CGu-CGGc- -3'
miRNA:   3'- -CUAGCCGCGGUUACUUcGCuuGCCcu -5'
24967 3' -54.1 NC_005284.1 + 40009 0.68 0.679328
Target:  5'- -uUCGGCaguugcugGCCAccGAAGuCGAGCGGcGAc -3'
miRNA:   3'- cuAGCCG--------CGGUuaCUUC-GCUUGCC-CU- -5'
24967 3' -54.1 NC_005284.1 + 43923 0.68 0.668279
Target:  5'- gGGUCGucuuGCGCCAAcUGAugcugcgcGGCGAcgagagcuuGCGGGAg -3'
miRNA:   3'- -CUAGC----CGCGGUU-ACU--------UCGCU---------UGCCCU- -5'
24967 3' -54.1 NC_005284.1 + 17424 0.68 0.646088
Target:  5'- --gCGGCGUCAAcgucGAAGUGAAgGGGc -3'
miRNA:   3'- cuaGCCGCGGUUa---CUUCGCUUgCCCu -5'
24967 3' -54.1 NC_005284.1 + 29879 0.68 0.634968
Target:  5'- uGGUCGGCGCCGgcGUGuuccaAGGCGAAUGucGAg -3'
miRNA:   3'- -CUAGCCGCGGU--UAC-----UUCGCUUGCc-CU- -5'
24967 3' -54.1 NC_005284.1 + 9513 0.68 0.634968
Target:  5'- gGGUCGGCGCCc----GGCGAGCGcucgucgaGGAg -3'
miRNA:   3'- -CUAGCCGCGGuuacuUCGCUUGC--------CCU- -5'
24967 3' -54.1 NC_005284.1 + 13357 0.69 0.601632
Target:  5'- uGUCGGCGgCAAgcUGAcGGUGGGCGGcGAu -3'
miRNA:   3'- cUAGCCGCgGUU--ACU-UCGCUUGCC-CU- -5'
24967 3' -54.1 NC_005284.1 + 36747 0.69 0.601632
Target:  5'- gGAUCGGCGUC---GAAGCGcuCGGcGAg -3'
miRNA:   3'- -CUAGCCGCGGuuaCUUCGCuuGCC-CU- -5'
24967 3' -54.1 NC_005284.1 + 7904 0.69 0.59056
Target:  5'- cGGUCGGCGaCCGcauguucuggAUcGAAGCGcuuCGGGAc -3'
miRNA:   3'- -CUAGCCGC-GGU----------UA-CUUCGCuu-GCCCU- -5'
24967 3' -54.1 NC_005284.1 + 2984 0.71 0.493494
Target:  5'- --gCGGCGCC-AUGAGGC---CGGGAa -3'
miRNA:   3'- cuaGCCGCGGuUACUUCGcuuGCCCU- -5'
24967 3' -54.1 NC_005284.1 + 16426 0.71 0.452684
Target:  5'- --aCGGCGCCAAggGAGGUGGugGuGGc -3'
miRNA:   3'- cuaGCCGCGGUUa-CUUCGCUugC-CCu -5'
24967 3' -54.1 NC_005284.1 + 29741 0.73 0.368167
Target:  5'- ---gGGCGCCGAacagcaccGgcGCGAGCGGGAu -3'
miRNA:   3'- cuagCCGCGGUUa-------CuuCGCUUGCCCU- -5'
24967 3' -54.1 NC_005284.1 + 47782 0.73 0.368167
Target:  5'- cGAggCGGCGCuCGcgGAGGCG-ACGGGc -3'
miRNA:   3'- -CUa-GCCGCG-GUuaCUUCGCuUGCCCu -5'
24967 3' -54.1 NC_005284.1 + 46756 0.73 0.359467
Target:  5'- aGUCGGCGCCGAgucacgGGAaCGGucACGGGAu -3'
miRNA:   3'- cUAGCCGCGGUUa-----CUUcGCU--UGCCCU- -5'
24967 3' -54.1 NC_005284.1 + 50185 1.09 0.001262
Target:  5'- cGAUCGGCGCCAAUGAAGCGAACGGGAu -3'
miRNA:   3'- -CUAGCCGCGGUUACUUCGCUUGCCCU- -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.