miRNA display CGI


Results 1 - 20 of 23 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
11901 3' -60 NC_003266.2 + 6586 0.66 0.385788
Target:  5'- gCUCaucaAGGAUGCCaauguaggUGGGGuAGCAGCg -3'
miRNA:   3'- gGGGg---UCCUACGGg-------GCUCCuUCGUCG- -5'
11901 3' -60 NC_003266.2 + 34303 0.66 0.376931
Target:  5'- -gCUCAGGAgauacugcacGUUCUGAGGGAGUGGCu -3'
miRNA:   3'- ggGGGUCCUa---------CGGGGCUCCUUCGUCG- -5'
11901 3' -60 NC_003266.2 + 15026 0.66 0.368212
Target:  5'- gCCgCAGG-UGacgUCCGAGGugguGAGCAGCg -3'
miRNA:   3'- gGGgGUCCuACg--GGGCUCC----UUCGUCG- -5'
11901 3' -60 NC_003266.2 + 7401 0.66 0.368212
Target:  5'- aCCgCGGGcgGCCCuUGAcGuGggGCAGUu -3'
miRNA:   3'- gGGgGUCCuaCGGG-GCU-C-CuuCGUCG- -5'
11901 3' -60 NC_003266.2 + 12165 0.66 0.351193
Target:  5'- gCCUCCAGGAUGgCCgaGAGccgguuggccuGggGCuGCu -3'
miRNA:   3'- -GGGGGUCCUACgGGg-CUC-----------CuuCGuCG- -5'
11901 3' -60 NC_003266.2 + 21150 0.66 0.347027
Target:  5'- aCCCCAGGucgcggaugaugGCCCUGAgcuccugcucgccGGAGcccGCGGCc -3'
miRNA:   3'- gGGGGUCCua----------CGGGGCU-------------CCUU---CGUCG- -5'
11901 3' -60 NC_003266.2 + 17315 0.66 0.342896
Target:  5'- -gCCgGGGAUcGCCCCGAucGccGCGGCg -3'
miRNA:   3'- ggGGgUCCUA-CGGGGCUc-CuuCGUCG- -5'
11901 3' -60 NC_003266.2 + 13212 0.67 0.334741
Target:  5'- cCCCCCGaccGGGUgcuaacgagcGCCCCuuguGGAagaaagagGGCAGCg -3'
miRNA:   3'- -GGGGGU---CCUA----------CGGGGcu--CCU--------UCGUCG- -5'
11901 3' -60 NC_003266.2 + 21195 0.67 0.329916
Target:  5'- aUCCCGGGAaucgcuuaucgaaggUGCCC--AGGAAGUAGg -3'
miRNA:   3'- gGGGGUCCU---------------ACGGGgcUCCUUCGUCg -5'
11901 3' -60 NC_003266.2 + 21151 0.67 0.29611
Target:  5'- uUCCCGGGAUucaugGCCCCGcacaAGGuGGCcuGCg -3'
miRNA:   3'- gGGGGUCCUA-----CGGGGC----UCCuUCGu-CG- -5'
11901 3' -60 NC_003266.2 + 12878 0.68 0.288812
Target:  5'- gCCCCAGuacgcgcuGA-GCgCCGAGGAGG-AGCg -3'
miRNA:   3'- gGGGGUC--------CUaCGgGGCUCCUUCgUCG- -5'
11901 3' -60 NC_003266.2 + 25202 0.68 0.274642
Target:  5'- gCCCCGGGGUGaguuucagaccCCCCuuGGcGGCAGa -3'
miRNA:   3'- gGGGGUCCUAC-----------GGGGcuCCuUCGUCg -5'
11901 3' -60 NC_003266.2 + 4624 0.68 0.261035
Target:  5'- uCUCCCAGGccuuaaGCUCCGAGGggGgGa- -3'
miRNA:   3'- -GGGGGUCCua----CGGGGCUCCuuCgUcg -5'
11901 3' -60 NC_003266.2 + 9201 0.69 0.247981
Target:  5'- aCUCCCGGGA-GCCuUCGAGcGcGAGguGCg -3'
miRNA:   3'- -GGGGGUCCUaCGG-GGCUC-C-UUCguCG- -5'
11901 3' -60 NC_003266.2 + 27141 0.69 0.247981
Target:  5'- gCCCUgAGGGUGCUCCucGGA--CAGCu -3'
miRNA:   3'- -GGGGgUCCUACGGGGcuCCUucGUCG- -5'
11901 3' -60 NC_003266.2 + 23293 0.69 0.223497
Target:  5'- gCCgCCGGGAgcgcacCCCCGAucgcGGAAGgGGCu -3'
miRNA:   3'- -GGgGGUCCUac----GGGGCU----CCUUCgUCG- -5'
11901 3' -60 NC_003266.2 + 9371 0.7 0.206509
Target:  5'- aUCUCCAGG-UGgCCCGGGGGguccccguugGGCAGg -3'
miRNA:   3'- -GGGGGUCCuACgGGGCUCCU----------UCGUCg -5'
11901 3' -60 NC_003266.2 + 23341 0.7 0.197913
Target:  5'- uUCCCUAGGAgaacacaauggccgGCCgCgGAGGAAGuCAGUu -3'
miRNA:   3'- -GGGGGUCCUa-------------CGG-GgCUCCUUC-GUCG- -5'
11901 3' -60 NC_003266.2 + 15592 0.71 0.180678
Target:  5'- gCCCUugAGGgcGCCCC-AGGGAGC-GCg -3'
miRNA:   3'- gGGGG--UCCuaCGGGGcUCCUUCGuCG- -5'
11901 3' -60 NC_003266.2 + 24212 0.71 0.175868
Target:  5'- aCCCCGaGA-GCUCCGAGGAGGgcaAGCc -3'
miRNA:   3'- gGGGGUcCUaCGGGGCUCCUUCg--UCG- -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.