miRNA display CGI


Results 1 - 20 of 21 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
24897 5' -55.5 NC_005284.1 + 21189 0.66 0.678039
Target:  5'- -aGAAUGCGCCGAuugcggaucggcuucGCugGUgggugCCGAAg- -3'
miRNA:   3'- uaCUUACGCGGCU---------------CGugCG-----GGCUUac -5'
24897 5' -55.5 NC_005284.1 + 41607 0.66 0.673612
Target:  5'- -cGAGgccGCGCCGAGUGCGagcuCCGAc-- -3'
miRNA:   3'- uaCUUa--CGCGGCUCGUGCg---GGCUuac -5'
24897 5' -55.5 NC_005284.1 + 22605 0.66 0.66252
Target:  5'- -cGAAUGCGUacauCGAGCG-GCUCGAuUGg -3'
miRNA:   3'- uaCUUACGCG----GCUCGUgCGGGCUuAC- -5'
24897 5' -55.5 NC_005284.1 + 8976 0.66 0.659186
Target:  5'- -cGAGUGCgugcggacaccuucGCCGAGCAUG-CCGAc-- -3'
miRNA:   3'- uaCUUACG--------------CGGCUCGUGCgGGCUuac -5'
24897 5' -55.5 NC_005284.1 + 31793 0.66 0.651399
Target:  5'- -cGGA-GCGCgGcuccGGCugGCUCGGAUGg -3'
miRNA:   3'- uaCUUaCGCGgC----UCGugCGGGCUUAC- -5'
24897 5' -55.5 NC_005284.1 + 54131 0.66 0.640259
Target:  5'- -cGGAgccgGUaGCCGGGCugGCCCGc--- -3'
miRNA:   3'- uaCUUa---CG-CGGCUCGugCGGGCuuac -5'
24897 5' -55.5 NC_005284.1 + 26932 0.66 0.640259
Target:  5'- --cGAUGCGCCGGGCGgGCgUCGucUGg -3'
miRNA:   3'- uacUUACGCGGCUCGUgCG-GGCuuAC- -5'
24897 5' -55.5 NC_005284.1 + 46459 0.67 0.595728
Target:  5'- -cGAAUGcCGCCGAGC--GUCCGAc-- -3'
miRNA:   3'- uaCUUAC-GCGGCUCGugCGGGCUuac -5'
24897 5' -55.5 NC_005284.1 + 46041 0.67 0.58465
Target:  5'- -----gGCGUCGAGCAgGCCuCGAcgGc -3'
miRNA:   3'- uacuuaCGCGGCUCGUgCGG-GCUuaC- -5'
24897 5' -55.5 NC_005284.1 + 53565 0.67 0.573614
Target:  5'- cAUGAGcgGCuGCCGGcGCGCGCCCa---- -3'
miRNA:   3'- -UACUUa-CG-CGGCU-CGUGCGGGcuuac -5'
24897 5' -55.5 NC_005284.1 + 18481 0.68 0.562626
Target:  5'- -cGggUgcGCGCCGAGaaCGCGCUCGGcGUGa -3'
miRNA:   3'- uaCuuA--CGCGGCUC--GUGCGGGCU-UAC- -5'
24897 5' -55.5 NC_005284.1 + 48877 0.68 0.551696
Target:  5'- -aGAAgucgGCGCCGuGGaCACGCCCGc--- -3'
miRNA:   3'- uaCUUa---CGCGGC-UC-GUGCGGGCuuac -5'
24897 5' -55.5 NC_005284.1 + 11750 0.68 0.530039
Target:  5'- -gGAcgGCacGCUGGGUuCGCCCGAGUa -3'
miRNA:   3'- uaCUuaCG--CGGCUCGuGCGGGCUUAc -5'
24897 5' -55.5 NC_005284.1 + 31435 0.69 0.498167
Target:  5'- -cGAcGUGCGCCGcugcGGCGCGCCgGGc-- -3'
miRNA:   3'- uaCU-UACGCGGC----UCGUGCGGgCUuac -5'
24897 5' -55.5 NC_005284.1 + 38256 0.69 0.498167
Target:  5'- uUGuccugGUGCCGccAGCGCGCCCGGc-- -3'
miRNA:   3'- uACuua--CGCGGC--UCGUGCGGGCUuac -5'
24897 5' -55.5 NC_005284.1 + 41368 0.71 0.370975
Target:  5'- -cGGAU-CGCCGAGaCACGCCCGcggucacGAUGu -3'
miRNA:   3'- uaCUUAcGCGGCUC-GUGCGGGC-------UUAC- -5'
24897 5' -55.5 NC_005284.1 + 38940 0.71 0.354447
Target:  5'- gGUGAAUGCGuCCGAaacGCACG-CCGAGc- -3'
miRNA:   3'- -UACUUACGC-GGCU---CGUGCgGGCUUac -5'
24897 5' -55.5 NC_005284.1 + 13306 0.72 0.345958
Target:  5'- uGUGAAgaacugGCacgucGCCGAGCGCGgUCGAAUGa -3'
miRNA:   3'- -UACUUa-----CG-----CGGCUCGUGCgGGCUUAC- -5'
24897 5' -55.5 NC_005284.1 + 32969 0.74 0.23624
Target:  5'- cUGGAaGCGCCGGGCACGCCg----- -3'
miRNA:   3'- uACUUaCGCGGCUCGUGCGGgcuuac -5'
24897 5' -55.5 NC_005284.1 + 37370 0.75 0.224039
Target:  5'- uUGAAUGCGuCCGcGCGCGUCUGAAg- -3'
miRNA:   3'- uACUUACGC-GGCuCGUGCGGGCUUac -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.