miRNA display CGI


Results 1 - 20 of 63 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
17020 3' -54.9 NC_004333.2 + 38183 1.11 0.00066
Target:  5'- aCGGCCGACAACCCGCGCAAAGAGUACg -3'
miRNA:   3'- -GCCGGCUGUUGGGCGCGUUUCUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 6734 0.76 0.188995
Target:  5'- aCGGCCGACucGCCCGCGUcGAGcAGcGCc -3'
miRNA:   3'- -GCCGGCUGu-UGGGCGCGuUUC-UCaUG- -5'
17020 3' -54.9 NC_004333.2 + 33505 0.75 0.240579
Target:  5'- uCGGCCGACAAgCUGCGCGAAa--UGCg -3'
miRNA:   3'- -GCCGGCUGUUgGGCGCGUUUcucAUG- -5'
17020 3' -54.9 NC_004333.2 + 6534 0.74 0.253531
Target:  5'- aCGGCCG-CAGCCCGCGCccGAcaaucugccgccAGAGcACg -3'
miRNA:   3'- -GCCGGCuGUUGGGCGCG--UU------------UCUCaUG- -5'
17020 3' -54.9 NC_004333.2 + 12220 0.74 0.262935
Target:  5'- cCGGCCGGCAACCCccaaucaccugcaggGCGCuucaucAGcAGUACu -3'
miRNA:   3'- -GCCGGCUGUUGGG---------------CGCGuu----UC-UCAUG- -5'
17020 3' -54.9 NC_004333.2 + 637 0.74 0.267052
Target:  5'- aCGGCCGuuuCGACuuGUGCGuuggcGAGUGCa -3'
miRNA:   3'- -GCCGGCu--GUUGggCGCGUuu---CUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 19768 0.74 0.273323
Target:  5'- uCGGCCGcucCAACgcacgggaucgugCCGCGCGuuGAGUGCg -3'
miRNA:   3'- -GCCGGCu--GUUG-------------GGCGCGUuuCUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 382 0.73 0.288416
Target:  5'- aGGCCGACAgaguuGCCgaGCGCGuAGAGcGCg -3'
miRNA:   3'- gCCGGCUGU-----UGGg-CGCGUuUCUCaUG- -5'
17020 3' -54.9 NC_004333.2 + 20753 0.73 0.326964
Target:  5'- uGGUCGACAGCcgucgCCGCGCAGGGu-UACg -3'
miRNA:   3'- gCCGGCUGUUG-----GGCGCGUUUCucAUG- -5'
17020 3' -54.9 NC_004333.2 + 46671 0.72 0.351015
Target:  5'- aGGCCGACucgccgucGCUCGCGCAGuucgagcaaaucuGGAuGUACg -3'
miRNA:   3'- gCCGGCUGu-------UGGGCGCGUU-------------UCU-CAUG- -5'
17020 3' -54.9 NC_004333.2 + 2030 0.72 0.357868
Target:  5'- aCGGCCG-CAucgaucacgucgacGCCCGCGCGAuAGAGc-- -3'
miRNA:   3'- -GCCGGCuGU--------------UGGGCGCGUU-UCUCaug -5'
17020 3' -54.9 NC_004333.2 + 26814 0.72 0.360461
Target:  5'- -uGCCGACGGCCCGgccugcagcguCGUAgcGAGUGCu -3'
miRNA:   3'- gcCGGCUGUUGGGC-----------GCGUuuCUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 2307 0.71 0.387111
Target:  5'- uGGCCGGCAcGCCCGCGUugaacuggcGGAaUGCg -3'
miRNA:   3'- gCCGGCUGU-UGGGCGCGuu-------UCUcAUG- -5'
17020 3' -54.9 NC_004333.2 + 22864 0.71 0.405583
Target:  5'- gCGGcCCGGCGAUCgGCGCGAuc-GUACu -3'
miRNA:   3'- -GCC-GGCUGUUGGgCGCGUUucuCAUG- -5'
17020 3' -54.9 NC_004333.2 + 41914 0.71 0.415026
Target:  5'- uGGCCuGAUggAACCgGacaGCGAGGGGUGCg -3'
miRNA:   3'- gCCGG-CUG--UUGGgCg--CGUUUCUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 8224 0.71 0.420755
Target:  5'- gCGGCaggauGACGccgGCCCGCGCGAGGuucugaauacguuGUGCg -3'
miRNA:   3'- -GCCGg----CUGU---UGGGCGCGUUUCu------------CAUG- -5'
17020 3' -54.9 NC_004333.2 + 39212 0.7 0.454099
Target:  5'- aCGGCCGcacgaucCAGCCCGCGCAcgcgauGGAcaGCg -3'
miRNA:   3'- -GCCGGCu------GUUGGGCGCGUu-----UCUcaUG- -5'
17020 3' -54.9 NC_004333.2 + 18525 0.7 0.454099
Target:  5'- gCGGCCuucGCAGCCgGCGgCAAcccGGGUGCg -3'
miRNA:   3'- -GCCGGc--UGUUGGgCGC-GUUu--CUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 18809 0.7 0.458116
Target:  5'- gCGGCCGcaggGCGcgugcugcuaucgaaGCCCGCGCGGc-AGUACg -3'
miRNA:   3'- -GCCGGC----UGU---------------UGGGCGCGUUucUCAUG- -5'
17020 3' -54.9 NC_004333.2 + 42847 0.7 0.464177
Target:  5'- gCGGCgUGACGAUCCaGCGCGAAG-GcGCg -3'
miRNA:   3'- -GCCG-GCUGUUGGG-CGCGUUUCuCaUG- -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.