miRNA display CGI


Results 1 - 20 of 67 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
23857 3' -54 NC_005261.1 + 74515 0.66 0.953113
Target:  5'- gCGGCGccgGGGCc-AUGGcGCUUGGGCGc -3'
miRNA:   3'- -GCCGUua-UCCGucUACU-CGAGCCUGC- -5'
23857 3' -54 NC_005261.1 + 17063 0.66 0.952704
Target:  5'- gCGGCcGUccuggaaGGGCgacgGGAUGGGCcCGGugGu -3'
miRNA:   3'- -GCCGuUA-------UCCG----UCUACUCGaGCCugC- -5'
23857 3' -54 NC_005261.1 + 105866 0.66 0.93487
Target:  5'- uCGGCGAUgcgguuGGGCAGGUgcacgaucGAGCacaucucCGGGCGc -3'
miRNA:   3'- -GCCGUUA------UCCGUCUA--------CUCGa------GCCUGC- -5'
23857 3' -54 NC_005261.1 + 33609 0.67 0.929692
Target:  5'- cCGGCGc-GGGCGGcgGGGCcCGGGgGc -3'
miRNA:   3'- -GCCGUuaUCCGUCuaCUCGaGCCUgC- -5'
23857 3' -54 NC_005261.1 + 92119 0.67 0.929692
Target:  5'- -cGUGGUAGGCgaAGAauAGCUCGGGCu -3'
miRNA:   3'- gcCGUUAUCCG--UCUacUCGAGCCUGc -5'
23857 3' -54 NC_005261.1 + 98359 0.67 0.929692
Target:  5'- gCGGgGGUGGGCGc--GGGCUCuGGCGg -3'
miRNA:   3'- -GCCgUUAUCCGUcuaCUCGAGcCUGC- -5'
23857 3' -54 NC_005261.1 + 24017 0.67 0.924266
Target:  5'- aGGgGAggGGGCGGAgcgcgGGGUUCGGGUGg -3'
miRNA:   3'- gCCgUUa-UCCGUCUa----CUCGAGCCUGC- -5'
23857 3' -54 NC_005261.1 + 32926 0.67 0.91859
Target:  5'- gGGCGGcGGGCGGGggggGGGCggGGAgGg -3'
miRNA:   3'- gCCGUUaUCCGUCUa---CUCGagCCUgC- -5'
23857 3' -54 NC_005261.1 + 114319 0.67 0.91859
Target:  5'- cCGGCAGUccggcgcaAGGUGGAcuGGCUCGaGCGg -3'
miRNA:   3'- -GCCGUUA--------UCCGUCUacUCGAGCcUGC- -5'
23857 3' -54 NC_005261.1 + 97952 0.67 0.91859
Target:  5'- gCGGCAAcgAGGgAGGUG-GCggCGGAgCGg -3'
miRNA:   3'- -GCCGUUa-UCCgUCUACuCGa-GCCU-GC- -5'
23857 3' -54 NC_005261.1 + 2595 0.67 0.91859
Target:  5'- gCGGCGgaagccgccGUcGGCGGcgGGGCcgcCGGGCGg -3'
miRNA:   3'- -GCCGU---------UAuCCGUCuaCUCGa--GCCUGC- -5'
23857 3' -54 NC_005261.1 + 23479 0.67 0.917425
Target:  5'- gCGGCGAgugcgcgggcccgccUGGGCAGGcgcGGGCccugggagcacgcggUCGGGCGa -3'
miRNA:   3'- -GCCGUU---------------AUCCGUCUa--CUCG---------------AGCCUGC- -5'
23857 3' -54 NC_005261.1 + 96833 0.67 0.912666
Target:  5'- uCGGCGGUgucgAGGcCGGGgucgacgggGGGCUCGGGgGg -3'
miRNA:   3'- -GCCGUUA----UCC-GUCUa--------CUCGAGCCUgC- -5'
23857 3' -54 NC_005261.1 + 82651 0.67 0.908993
Target:  5'- uGGUcGUAGcacgcGCGGAUGAGCgccucgagccgcucgUCGGGCGc -3'
miRNA:   3'- gCCGuUAUC-----CGUCUACUCG---------------AGCCUGC- -5'
23857 3' -54 NC_005261.1 + 26879 0.67 0.906495
Target:  5'- nGGgGGUGGGUGGGgggGGGCggGGGCGc -3'
miRNA:   3'- gCCgUUAUCCGUCUa--CUCGagCCUGC- -5'
23857 3' -54 NC_005261.1 + 35266 0.67 0.906495
Target:  5'- aGGCAGUGGuGguGAcGGGCggugagggaGGACGa -3'
miRNA:   3'- gCCGUUAUC-CguCUaCUCGag-------CCUGC- -5'
23857 3' -54 NC_005261.1 + 129735 0.67 0.906495
Target:  5'- gCGGCA--GGGCGGcgGGGCcCGGcCu -3'
miRNA:   3'- -GCCGUuaUCCGUCuaCUCGaGCCuGc -5'
23857 3' -54 NC_005261.1 + 69510 0.67 0.906495
Target:  5'- cCGGCGGcGGGCuGccgGAGCUggcgCGGGCGc -3'
miRNA:   3'- -GCCGUUaUCCGuCua-CUCGA----GCCUGC- -5'
23857 3' -54 NC_005261.1 + 135093 0.67 0.906495
Target:  5'- gCGGCcc--GGCGGcgGAGCgcgaggCGGACc -3'
miRNA:   3'- -GCCGuuauCCGUCuaCUCGa-----GCCUGc -5'
23857 3' -54 NC_005261.1 + 70561 0.67 0.906495
Target:  5'- -cGCA--GGGCGccgcGAaGAGCUCGGGCGc -3'
miRNA:   3'- gcCGUuaUCCGU----CUaCUCGAGCCUGC- -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.