miRNA display CGI


Results 1 - 20 of 43 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
15925 3' -55.3 NC_004065.1 + 184789 0.66 0.973514
Target:  5'- cGCgaCGGGCggAGGAgg--ACGGUGACGc -3'
miRNA:   3'- -UGaaGCCCG--UCCUauggUGCCACUGC- -5'
15925 3' -55.3 NC_004065.1 + 56611 0.66 0.973514
Target:  5'- ---gCGaGCAGGcgGCCGCGGaUGugGa -3'
miRNA:   3'- ugaaGCcCGUCCuaUGGUGCC-ACugC- -5'
15925 3' -55.3 NC_004065.1 + 229877 0.66 0.973514
Target:  5'- uCUUCuuGGCAcGGUGCCAcgcccuCGGUGACGu -3'
miRNA:   3'- uGAAGc-CCGUcCUAUGGU------GCCACUGC- -5'
15925 3' -55.3 NC_004065.1 + 18138 0.66 0.970535
Target:  5'- cGCcgCGGGaCGGGAUGuuggcgguaucguCCGCGG-GGCGu -3'
miRNA:   3'- -UGaaGCCC-GUCCUAU-------------GGUGCCaCUGC- -5'
15925 3' -55.3 NC_004065.1 + 169842 0.66 0.969104
Target:  5'- ---aCGGGCucGGGA-ACCgcgacggguucggggACGGUGACGg -3'
miRNA:   3'- ugaaGCCCG--UCCUaUGG---------------UGCCACUGC- -5'
15925 3' -55.3 NC_004065.1 + 29427 0.66 0.967925
Target:  5'- ----aGGGCAGGGagaagacggUGCCGggguaGGUGGCGg -3'
miRNA:   3'- ugaagCCCGUCCU---------AUGGUg----CCACUGC- -5'
15925 3' -55.3 NC_004065.1 + 98075 0.66 0.964837
Target:  5'- --gUCGGGCAGGu--CCAUGGgGAa- -3'
miRNA:   3'- ugaAGCCCGUCCuauGGUGCCaCUgc -5'
15925 3' -55.3 NC_004065.1 + 127214 0.66 0.964517
Target:  5'- -gUUCGGGagcGGcgGCCgcgaggaucgggcGCGGUGGCGg -3'
miRNA:   3'- ugAAGCCCgu-CCuaUGG-------------UGCCACUGC- -5'
15925 3' -55.3 NC_004065.1 + 30300 0.66 0.962887
Target:  5'- uGCgggUCGGGCAGGAU-CCuuuucgcgucgaguCGGUGcugaGCGu -3'
miRNA:   3'- -UGa--AGCCCGUCCUAuGGu-------------GCCAC----UGC- -5'
15925 3' -55.3 NC_004065.1 + 74585 0.66 0.961546
Target:  5'- ----aGGGaCAGuuGGUGCCGuCGGUGGCGg -3'
miRNA:   3'- ugaagCCC-GUC--CUAUGGU-GCCACUGC- -5'
15925 3' -55.3 NC_004065.1 + 11802 0.66 0.961546
Target:  5'- cCUagGGGUuuuuauuGGAUGCCGgacggaguCGGUGGCGg -3'
miRNA:   3'- uGAagCCCGu------CCUAUGGU--------GCCACUGC- -5'
15925 3' -55.3 NC_004065.1 + 172084 0.66 0.961546
Target:  5'- gGCUgUGGGUggaggggccggGGGAggcggcucugACCGCGGUGGCu -3'
miRNA:   3'- -UGAaGCCCG-----------UCCUa---------UGGUGCCACUGc -5'
15925 3' -55.3 NC_004065.1 + 80377 0.66 0.961205
Target:  5'- cGCUgCGGcgcguGCAGGGccUGCCGacggcgcCGGUGACGg -3'
miRNA:   3'- -UGAaGCC-----CGUCCU--AUGGU-------GCCACUGC- -5'
15925 3' -55.3 NC_004065.1 + 55782 0.67 0.958047
Target:  5'- --cUCGGcgccgaGCAGGcgAUCGCGGcUGACGa -3'
miRNA:   3'- ugaAGCC------CGUCCuaUGGUGCC-ACUGC- -5'
15925 3' -55.3 NC_004065.1 + 202240 0.67 0.958047
Target:  5'- uGCUg-GGGCAGGAgGCCcuccagACGGcGGCGc -3'
miRNA:   3'- -UGAagCCCGUCCUaUGG------UGCCaCUGC- -5'
15925 3' -55.3 NC_004065.1 + 118685 0.67 0.95041
Target:  5'- ---gCGGagaucCAGGcgACCACGGUGACc -3'
miRNA:   3'- ugaaGCCc----GUCCuaUGGUGCCACUGc -5'
15925 3' -55.3 NC_004065.1 + 228306 0.67 0.950006
Target:  5'- uACUUUGGGUGGGAcggcgggUGCUuuggGCGGUggGACGu -3'
miRNA:   3'- -UGAAGCCCGUCCU-------AUGG----UGCCA--CUGC- -5'
15925 3' -55.3 NC_004065.1 + 169144 0.67 0.946265
Target:  5'- gACgUCGGGCGGGAaUACgAgGGccUGAUGg -3'
miRNA:   3'- -UGaAGCCCGUCCU-AUGgUgCC--ACUGC- -5'
15925 3' -55.3 NC_004065.1 + 27833 0.67 0.941899
Target:  5'- ---cCGGGguGGuggcuggccgugGUGCCGCGG-GGCGa -3'
miRNA:   3'- ugaaGCCCguCC------------UAUGGUGCCaCUGC- -5'
15925 3' -55.3 NC_004065.1 + 40098 0.67 0.941899
Target:  5'- gACUUCGGuGUuguuGGcgGCCGCuauauugguGGUGGCGa -3'
miRNA:   3'- -UGAAGCC-CGu---CCuaUGGUG---------CCACUGC- -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.