miRNA display CGI


Results 1 - 20 of 30 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
30246 3' -57.4 NC_006273.1 + 228203 1.06 0.005274
Target:  5'- cCGGAGACCGUCCACGCCGUUGGGAAAg -3'
miRNA:   3'- -GCCUCUGGCAGGUGCGGCAACCCUUU- -5'
30246 3' -57.4 NC_006273.1 + 125885 0.73 0.584178
Target:  5'- aGGAGGCaCGcCCGCGCggguUGUUGGGGAu -3'
miRNA:   3'- gCCUCUG-GCaGGUGCG----GCAACCCUUu -5'
30246 3' -57.4 NC_006273.1 + 71049 0.7 0.749187
Target:  5'- cCGGAGGCUGUCagaGCGCC---GGGAGc -3'
miRNA:   3'- -GCCUCUGGCAGg--UGCGGcaaCCCUUu -5'
30246 3' -57.4 NC_006273.1 + 69994 0.7 0.776573
Target:  5'- cCGGAGGCCGccaacUCCGUGCUGUUGGa--- -3'
miRNA:   3'- -GCCUCUGGC-----AGGUGCGGCAACCcuuu -5'
30246 3' -57.4 NC_006273.1 + 190067 0.69 0.794246
Target:  5'- gCGGGGggacgaacACCGUCgGCGCCGaaaccgGGGGAc -3'
miRNA:   3'- -GCCUC--------UGGCAGgUGCGGCaa----CCCUUu -5'
30246 3' -57.4 NC_006273.1 + 14601 0.69 0.794246
Target:  5'- cCGcGAG-CCGcUgACGCCGUUGGGAu- -3'
miRNA:   3'- -GC-CUCuGGCaGgUGCGGCAACCCUuu -5'
30246 3' -57.4 NC_006273.1 + 44783 0.69 0.794246
Target:  5'- aGGAGAUCG-CCGCGgCCGaUGGGc-- -3'
miRNA:   3'- gCCUCUGGCaGGUGC-GGCaACCCuuu -5'
30246 3' -57.4 NC_006273.1 + 94494 0.69 0.811377
Target:  5'- cCGGGGucccgguucCCGUCCGCGgcCCGggGGGAc- -3'
miRNA:   3'- -GCCUCu--------GGCAGGUGC--GGCaaCCCUuu -5'
30246 3' -57.4 NC_006273.1 + 14198 0.68 0.85145
Target:  5'- uCGGAGcACUuUCCGCGgCGcUUGGGAGc -3'
miRNA:   3'- -GCCUC-UGGcAGGUGCgGC-AACCCUUu -5'
30246 3' -57.4 NC_006273.1 + 83345 0.68 0.866236
Target:  5'- gGuGGGACCcggCgGCGCCGUggUGGGAGGa -3'
miRNA:   3'- gC-CUCUGGca-GgUGCGGCA--ACCCUUU- -5'
30246 3' -57.4 NC_006273.1 + 117202 0.68 0.869101
Target:  5'- uCGGgcgacagccgcagucAGGCCG-CCACGCCGgcggcUGGGGc- -3'
miRNA:   3'- -GCC---------------UCUGGCaGGUGCGGCa----ACCCUuu -5'
30246 3' -57.4 NC_006273.1 + 194138 0.67 0.872638
Target:  5'- uCGGAGGCCGUCgacuccaCGCGCCGc-GGuGAc- -3'
miRNA:   3'- -GCCUCUGGCAG-------GUGCGGCaaCC-CUuu -5'
30246 3' -57.4 NC_006273.1 + 111516 0.67 0.872638
Target:  5'- aGGGGACaCGcgaguaagCCAUGCCGUccgggugUGGGGAc -3'
miRNA:   3'- gCCUCUG-GCa-------GGUGCGGCA-------ACCCUUu -5'
30246 3' -57.4 NC_006273.1 + 229902 0.67 0.886942
Target:  5'- gGGAGuACC-UCCuCGCCGUcaccGGGAAAc -3'
miRNA:   3'- gCCUC-UGGcAGGuGCGGCAa---CCCUUU- -5'
30246 3' -57.4 NC_006273.1 + 194487 0.67 0.893433
Target:  5'- aCGGuGA-CGUCgACGCCGguucaGGGAAGg -3'
miRNA:   3'- -GCCuCUgGCAGgUGCGGCaa---CCCUUU- -5'
30246 3' -57.4 NC_006273.1 + 17021 0.67 0.89597
Target:  5'- aGGcGACCGuuUCCGCGCCGaaaugcuaaauaacUGGGAu- -3'
miRNA:   3'- gCCuCUGGC--AGGUGCGGCa-------------ACCCUuu -5'
30246 3' -57.4 NC_006273.1 + 111325 0.67 0.89597
Target:  5'- gGGAGGCCuGgccgcauagcgcggCCGCGCCGcUGGGu-- -3'
miRNA:   3'- gCCUCUGG-Ca-------------GGUGCGGCaACCCuuu -5'
30246 3' -57.4 NC_006273.1 + 182624 0.67 0.899712
Target:  5'- uGGuGGCCGcgUCUugGCCGaggccgGGGAGGa -3'
miRNA:   3'- gCCuCUGGC--AGGugCGGCaa----CCCUUU- -5'
30246 3' -57.4 NC_006273.1 + 99174 0.67 0.899712
Target:  5'- aGGGGGCCGUCauuaACGgaaaCCGUguaUGGGGu- -3'
miRNA:   3'- gCCUCUGGCAGg---UGC----GGCA---ACCCUuu -5'
30246 3' -57.4 NC_006273.1 + 1265 0.67 0.905777
Target:  5'- aCGGGGGCCuUUCGCGgCGgacacgGGGAAc -3'
miRNA:   3'- -GCCUCUGGcAGGUGCgGCaa----CCCUUu -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.