miRNA display CGI


Results 1 - 20 of 21 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
22728 3' -60.1 NC_005091.1 + 42738 0.66 0.46896
Target:  5'- -uCUUCCgCgACGGCGACGCGUcgGGCa-- -3'
miRNA:   3'- acGAAGG-G-UGUCGCUGCGCG--CCGcua -5'
22728 3' -60.1 NC_005091.1 + 34761 0.66 0.46896
Target:  5'- gGCcaugUCCCgGCcGCG-CGCGuCGGCGAUc -3'
miRNA:   3'- aCGa---AGGG-UGuCGCuGCGC-GCCGCUA- -5'
22728 3' -60.1 NC_005091.1 + 33200 0.66 0.46896
Target:  5'- cUGCUucaugUCCUGuacgaggcCGGCGuaAUGCGCGGCGAc -3'
miRNA:   3'- -ACGA-----AGGGU--------GUCGC--UGCGCGCCGCUa -5'
22728 3' -60.1 NC_005091.1 + 6437 0.66 0.46896
Target:  5'- cGC-UCCCgaggGCAGCGuGCGCGCuGCGc- -3'
miRNA:   3'- aCGaAGGG----UGUCGC-UGCGCGcCGCua -5'
22728 3' -60.1 NC_005091.1 + 2625 0.67 0.41208
Target:  5'- gGUcgCCCACGuaguucggguuGCGcACGCGCGGCaGAa -3'
miRNA:   3'- aCGaaGGGUGU-----------CGC-UGCGCGCCG-CUa -5'
22728 3' -60.1 NC_005091.1 + 26357 0.67 0.41208
Target:  5'- gGCagCCC-CGGCGGCcCGCGcGCGGUc -3'
miRNA:   3'- aCGaaGGGuGUCGCUGcGCGC-CGCUA- -5'
22728 3' -60.1 NC_005091.1 + 37796 0.67 0.41208
Target:  5'- cGCUUCCCGCA-CG-CGCGCaGCc-- -3'
miRNA:   3'- aCGAAGGGUGUcGCuGCGCGcCGcua -5'
22728 3' -60.1 NC_005091.1 + 48600 0.67 0.394089
Target:  5'- gGggUCCCAucCGGCGAgGCGCgaauGGCGGg -3'
miRNA:   3'- aCgaAGGGU--GUCGCUgCGCG----CCGCUa -5'
22728 3' -60.1 NC_005091.1 + 15981 0.67 0.394089
Target:  5'- cUGCUUgUCGCucuGCGAUGCGaCGGCu-- -3'
miRNA:   3'- -ACGAAgGGUGu--CGCUGCGC-GCCGcua -5'
22728 3' -60.1 NC_005091.1 + 31537 0.67 0.394089
Target:  5'- uUGCUggcgCUCguuACAGCGACGaGCGuGCGGUa -3'
miRNA:   3'- -ACGAa---GGG---UGUCGCUGCgCGC-CGCUA- -5'
22728 3' -60.1 NC_005091.1 + 26688 0.67 0.385286
Target:  5'- aGCUUgCUGCuGCGGCGgccgGCGGCGGc -3'
miRNA:   3'- aCGAAgGGUGuCGCUGCg---CGCCGCUa -5'
22728 3' -60.1 NC_005091.1 + 34556 0.67 0.376614
Target:  5'- gUGCUggcgacugCCgAguGgGAcCGCGCGGCGAa -3'
miRNA:   3'- -ACGAa-------GGgUguCgCU-GCGCGCCGCUa -5'
22728 3' -60.1 NC_005091.1 + 24891 0.68 0.351399
Target:  5'- gGCUUCCU-CGGCGGCcuGCGCagcacGGCGGa -3'
miRNA:   3'- aCGAAGGGuGUCGCUG--CGCG-----CCGCUa -5'
22728 3' -60.1 NC_005091.1 + 45791 0.68 0.343264
Target:  5'- aGUagCCgGC-GCGGCGCGCGGcCGAc -3'
miRNA:   3'- aCGaaGGgUGuCGCUGCGCGCC-GCUa -5'
22728 3' -60.1 NC_005091.1 + 20351 0.68 0.335266
Target:  5'- gGCUaCUCgcaaaGCGGCGACGCGuCGGcCGAUu -3'
miRNA:   3'- aCGAaGGG-----UGUCGCUGCGC-GCC-GCUA- -5'
22728 3' -60.1 NC_005091.1 + 42058 0.68 0.327405
Target:  5'- aGCgUgCCACGGCGACGUGCuGCu-- -3'
miRNA:   3'- aCGaAgGGUGUCGCUGCGCGcCGcua -5'
22728 3' -60.1 NC_005091.1 + 12377 0.7 0.25632
Target:  5'- cGCgg-CCAguGCGACG-GCGGCGAc -3'
miRNA:   3'- aCGaagGGUguCGCUGCgCGCCGCUa -5'
22728 3' -60.1 NC_005091.1 + 15343 0.7 0.23761
Target:  5'- aGCg-CCCACGGaCGgccaacgguacACGCGCGGCGGc -3'
miRNA:   3'- aCGaaGGGUGUC-GC-----------UGCGCGCCGCUa -5'
22728 3' -60.1 NC_005091.1 + 28252 0.72 0.188262
Target:  5'- gGUUUCCgGugcaacCGGCGACGCGCuGGCGGc -3'
miRNA:   3'- aCGAAGGgU------GUCGCUGCGCG-CCGCUa -5'
22728 3' -60.1 NC_005091.1 + 23511 0.72 0.173931
Target:  5'- aUGCagaUCAUGGCGacGCGCGCGGCGAUg -3'
miRNA:   3'- -ACGaagGGUGUCGC--UGCGCGCCGCUA- -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.