miRNA display CGI


Results 1 - 20 of 51 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
10702 3' -53.3 NC_002794.1 + 11875 0.66 0.988021
Target:  5'- --cCGccCCGCGACGggucCUCGAGCGggUUCGu -3'
miRNA:   3'- uuaGCa-GGCGCUGC----GAGCUUGC--AAGC- -5'
10702 3' -53.3 NC_002794.1 + 12171 0.69 0.925434
Target:  5'- gGAUCGUcgccgccgacgccgCCGCGGCcgggcgccGCUCGGACGUgccggCGg -3'
miRNA:   3'- -UUAGCA--------------GGCGCUG--------CGAGCUUGCAa----GC- -5'
10702 3' -53.3 NC_002794.1 + 12245 0.69 0.946256
Target:  5'- --cCGUCCGCGGCGC-CGAucCGgaaCGa -3'
miRNA:   3'- uuaGCAGGCGCUGCGaGCUu-GCaa-GC- -5'
10702 3' -53.3 NC_002794.1 + 13122 0.68 0.961808
Target:  5'- gGGUCG-CCGCGcggcuCGCUCGcGCGggUCGu -3'
miRNA:   3'- -UUAGCaGGCGCu----GCGAGCuUGCa-AGC- -5'
10702 3' -53.3 NC_002794.1 + 13953 0.68 0.961808
Target:  5'- -uUCGUgCGUGucgagcCGCUCGGagACGUUCGc -3'
miRNA:   3'- uuAGCAgGCGCu-----GCGAGCU--UGCAAGC- -5'
10702 3' -53.3 NC_002794.1 + 17449 0.66 0.982969
Target:  5'- -cUCGggcCCGCGACcgaGgUCGAAgGUUCGc -3'
miRNA:   3'- uuAGCa--GGCGCUG---CgAGCUUgCAAGC- -5'
10702 3' -53.3 NC_002794.1 + 21893 0.67 0.976453
Target:  5'- --gUGUCCGCGGCcuGCgUCGGugGUggCGg -3'
miRNA:   3'- uuaGCAGGCGCUG--CG-AGCUugCAa-GC- -5'
10702 3' -53.3 NC_002794.1 + 22597 0.66 0.98097
Target:  5'- -cUCGgcacggUCGgGACGCUCGAGcCGaUCGg -3'
miRNA:   3'- uuAGCa-----GGCgCUGCGAGCUU-GCaAGC- -5'
10702 3' -53.3 NC_002794.1 + 30383 0.7 0.910137
Target:  5'- cGAUCGUcauggccgcCCGCGACGUgaugccguggUCGAACG-UCGu -3'
miRNA:   3'- -UUAGCA---------GGCGCUGCG----------AGCUUGCaAGC- -5'
10702 3' -53.3 NC_002794.1 + 40632 0.66 0.989418
Target:  5'- ---aGUCCGCGAgCGCgagcUGAGCGggCa -3'
miRNA:   3'- uuagCAGGCGCU-GCGa---GCUUGCaaGc -5'
10702 3' -53.3 NC_002794.1 + 44381 0.83 0.301031
Target:  5'- --aCGUCCGCGACGCUCGAcgcgccCGUUCc -3'
miRNA:   3'- uuaGCAGGCGCUGCGAGCUu-----GCAAGc -5'
10702 3' -53.3 NC_002794.1 + 47334 0.66 0.989418
Target:  5'- --cCGgcucCCGCGGCgGCggccucCGGACGUUCGc -3'
miRNA:   3'- uuaGCa---GGCGCUG-CGa-----GCUUGCAAGC- -5'
10702 3' -53.3 NC_002794.1 + 50667 0.67 0.971196
Target:  5'- --gCGgCCGCGGCGCUCGccGCGaaUCGa -3'
miRNA:   3'- uuaGCaGGCGCUGCGAGCu-UGCa-AGC- -5'
10702 3' -53.3 NC_002794.1 + 51105 0.72 0.847266
Target:  5'- --aCGaCCGCGccucGCGCUCGGACG-UCGa -3'
miRNA:   3'- uuaGCaGGCGC----UGCGAGCUUGCaAGC- -5'
10702 3' -53.3 NC_002794.1 + 52781 0.66 0.986486
Target:  5'- --gCGggaUCGUGACGCUCGAGCcgcucgUCGg -3'
miRNA:   3'- uuaGCa--GGCGCUGCGAGCUUGca----AGC- -5'
10702 3' -53.3 NC_002794.1 + 59220 0.69 0.937111
Target:  5'- -cUCGgCCGCGGCGCgCGAGCucUUCGc -3'
miRNA:   3'- uuAGCaGGCGCUGCGaGCUUGc-AAGC- -5'
10702 3' -53.3 NC_002794.1 + 60217 0.66 0.988021
Target:  5'- --aCGaCCGCGACGCcgcCGAGCGcgCc -3'
miRNA:   3'- uuaGCaGGCGCUGCGa--GCUUGCaaGc -5'
10702 3' -53.3 NC_002794.1 + 61881 0.69 0.946256
Target:  5'- cGUCGUCgGCGcCGCgcggCGAGCGcggCGa -3'
miRNA:   3'- uUAGCAGgCGCuGCGa---GCUUGCaa-GC- -5'
10702 3' -53.3 NC_002794.1 + 63510 0.74 0.750086
Target:  5'- cGUCGUCCGCGACGCcucccgcgCGAGCcgccUCGc -3'
miRNA:   3'- uUAGCAGGCGCUGCGa-------GCUUGca--AGC- -5'
10702 3' -53.3 NC_002794.1 + 65166 0.67 0.977414
Target:  5'- --cCGUCCGUGGCGC-CGAgaccggcgggugccgGCGaggUCGg -3'
miRNA:   3'- uuaGCAGGCGCUGCGaGCU---------------UGCa--AGC- -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.