miRNA display CGI


Results 1 - 20 of 42 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
21184 3' -56.3 NC_004778.3 + 112814 0.66 0.892509
Target:  5'- gUUGUGCuCGuUUGGCACCGgaaGCUcGGg -3'
miRNA:   3'- -AGCACG-GC-AGCCGUGGCaugCGAaCU- -5'
21184 3' -56.3 NC_004778.3 + 5137 0.66 0.892509
Target:  5'- cCGUGCCcacGcCGGCGCC--GCGCUUc- -3'
miRNA:   3'- aGCACGG---CaGCCGUGGcaUGCGAAcu -5'
21184 3' -56.3 NC_004778.3 + 77915 0.66 0.885715
Target:  5'- gCGUGCacaucCGUCGGCAgCCuaACGCUgauUGAu -3'
miRNA:   3'- aGCACG-----GCAGCCGU-GGcaUGCGA---ACU- -5'
21184 3' -56.3 NC_004778.3 + 9895 0.66 0.878695
Target:  5'- -aGUGCCGcCcgGGCGCggUGUGCGCUuuagUGAa -3'
miRNA:   3'- agCACGGCaG--CCGUG--GCAUGCGA----ACU- -5'
21184 3' -56.3 NC_004778.3 + 32276 0.66 0.878695
Target:  5'- aCGcugGCCGgCGGCGCCGUGucgggcuggUGCUUa- -3'
miRNA:   3'- aGCa--CGGCaGCCGUGGCAU---------GCGAAcu -5'
21184 3' -56.3 NC_004778.3 + 40874 0.66 0.878695
Target:  5'- aUGUGCUuuUCGGCguccacauuGCCGUacaaaaacauGCGCUUGAa -3'
miRNA:   3'- aGCACGGc-AGCCG---------UGGCA----------UGCGAACU- -5'
21184 3' -56.3 NC_004778.3 + 45319 0.66 0.871455
Target:  5'- ---cGCCGUCcGCugUGUGCGCUc-- -3'
miRNA:   3'- agcaCGGCAGcCGugGCAUGCGAacu -5'
21184 3' -56.3 NC_004778.3 + 32547 0.66 0.864
Target:  5'- cCGcGaCGaCGGCGCCGUACGCg--- -3'
miRNA:   3'- aGCaCgGCaGCCGUGGCAUGCGaacu -5'
21184 3' -56.3 NC_004778.3 + 51565 0.66 0.856335
Target:  5'- cCGUGUCGUUG--ACCGUACGgaUGGu -3'
miRNA:   3'- aGCACGGCAGCcgUGGCAUGCgaACU- -5'
21184 3' -56.3 NC_004778.3 + 59221 0.67 0.848466
Target:  5'- cCGUGCUGUcCGGCGCUuggGCGCc--- -3'
miRNA:   3'- aGCACGGCA-GCCGUGGca-UGCGaacu -5'
21184 3' -56.3 NC_004778.3 + 64671 0.67 0.848466
Target:  5'- aUUG-GCCaUCGGCGCCGUGUGCa--- -3'
miRNA:   3'- -AGCaCGGcAGCCGUGGCAUGCGaacu -5'
21184 3' -56.3 NC_004778.3 + 64770 0.67 0.840401
Target:  5'- cCGUGCacaCGGCGCCGauggccaaUAUGCUUGu -3'
miRNA:   3'- aGCACGgcaGCCGUGGC--------AUGCGAACu -5'
21184 3' -56.3 NC_004778.3 + 107450 0.67 0.832146
Target:  5'- -gGUGCCGUCGGauuUACUGaGCGCg--- -3'
miRNA:   3'- agCACGGCAGCC---GUGGCaUGCGaacu -5'
21184 3' -56.3 NC_004778.3 + 61361 0.67 0.823708
Target:  5'- aUGUGCgGaCGGCGCCG-GCGCg--- -3'
miRNA:   3'- aGCACGgCaGCCGUGGCaUGCGaacu -5'
21184 3' -56.3 NC_004778.3 + 50869 0.67 0.823708
Target:  5'- --aUGCUGUUGGC--CGUGCGCUUGc -3'
miRNA:   3'- agcACGGCAGCCGugGCAUGCGAACu -5'
21184 3' -56.3 NC_004778.3 + 49021 0.67 0.815095
Target:  5'- -gGUGCgGcUGGCGCCGUAC-UUUGAc -3'
miRNA:   3'- agCACGgCaGCCGUGGCAUGcGAACU- -5'
21184 3' -56.3 NC_004778.3 + 127069 0.67 0.815095
Target:  5'- gCGUGCCGUCGuGCAcgcCCGgcgagugcucGCGUUUGc -3'
miRNA:   3'- aGCACGGCAGC-CGU---GGCa---------UGCGAACu -5'
21184 3' -56.3 NC_004778.3 + 62693 0.67 0.815095
Target:  5'- -aGUGagGUCGGCGCCG-ACGCa--- -3'
miRNA:   3'- agCACggCAGCCGUGGCaUGCGaacu -5'
21184 3' -56.3 NC_004778.3 + 36466 0.67 0.815095
Target:  5'- -gGUGUgGUgGGCGCCaccacGCGCUUGGc -3'
miRNA:   3'- agCACGgCAgCCGUGGca---UGCGAACU- -5'
21184 3' -56.3 NC_004778.3 + 86807 0.67 0.815095
Target:  5'- cUCGUGCacCGUCGGCGgCGgaACGCa--- -3'
miRNA:   3'- -AGCACG--GCAGCCGUgGCa-UGCGaacu -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.