miRNA display CGI


Results 1 - 20 of 41 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
12219 3' -53.8 NC_003309.1 + 15037 0.65 0.817461
Target:  5'- gCCGA----CAGCGUucguguaacggaagGUCAGCgACGGCCg -3'
miRNA:   3'- -GGCUcuacGUCGCG--------------UAGUUG-UGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 27341 0.66 0.810867
Target:  5'- aCGGGA-GCGGCGCggCGA-ACuGCCg -3'
miRNA:   3'- gGCUCUaCGUCGCGuaGUUgUGcCGG- -5'
12219 3' -53.8 NC_003309.1 + 11784 0.66 0.810867
Target:  5'- uUCGAGcgacuUGUA-CGCGUCGGCGCGcCCg -3'
miRNA:   3'- -GGCUCu----ACGUcGCGUAGUUGUGCcGG- -5'
12219 3' -53.8 NC_003309.1 + 8745 0.66 0.801286
Target:  5'- cCCGGcGAUGUcccgaAGCGCuUCGAUccagaacauGCGGUCg -3'
miRNA:   3'- -GGCU-CUACG-----UCGCGuAGUUG---------UGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 46660 0.66 0.801286
Target:  5'- aCCGGGc--CGGCGCGUaaugcgCAGCGCaccGGCCu -3'
miRNA:   3'- -GGCUCuacGUCGCGUA------GUUGUG---CCGG- -5'
12219 3' -53.8 NC_003309.1 + 18116 0.66 0.791526
Target:  5'- gUCGAccauCGaCGCAUCGACACGGUCg -3'
miRNA:   3'- -GGCUcuacGUcGCGUAGUUGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 11988 0.66 0.781597
Target:  5'- cCCGcgc-GCGGCaGCcgCGGCGCGcGCCg -3'
miRNA:   3'- -GGCucuaCGUCG-CGuaGUUGUGC-CGG- -5'
12219 3' -53.8 NC_003309.1 + 46056 0.66 0.781597
Target:  5'- gUCGAGcAUGCgAGC-CAUCuuCuCGGCCc -3'
miRNA:   3'- -GGCUC-UACG-UCGcGUAGuuGuGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 13489 0.66 0.771511
Target:  5'- cCCGcuGGGUGUAGC-CGUCGccgaAUugGGCUu -3'
miRNA:   3'- -GGC--UCUACGUCGcGUAGU----UGugCCGG- -5'
12219 3' -53.8 NC_003309.1 + 1378 0.67 0.750914
Target:  5'- uUCGAGcAuuucgaucaccUGcCGGCGCuuGUCGaaGCACGGCCc -3'
miRNA:   3'- -GGCUC-U-----------AC-GUCGCG--UAGU--UGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 7800 0.67 0.718053
Target:  5'- gUCGAGcgcgccAUGUAcGCGCGUCAcgacgaaAUACGGCg -3'
miRNA:   3'- -GGCUC------UACGU-CGCGUAGU-------UGUGCCGg -5'
12219 3' -53.8 NC_003309.1 + 39605 0.67 0.719128
Target:  5'- gCGAGcGUGCuGCGCuUCGugACGGa- -3'
miRNA:   3'- gGCUC-UACGuCGCGuAGUugUGCCgg -5'
12219 3' -53.8 NC_003309.1 + 23011 0.67 0.74987
Target:  5'- gCGGGAUGaugugguCAGCGaGUCGACGCuuGCCg -3'
miRNA:   3'- gGCUCUAC-------GUCGCgUAGUUGUGc-CGG- -5'
12219 3' -53.8 NC_003309.1 + 28364 0.67 0.750914
Target:  5'- -----cUGCAGCGC----ACGCGGCCa -3'
miRNA:   3'- ggcucuACGUCGCGuaguUGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 43529 0.67 0.750914
Target:  5'- gCCGucGGcgGCcaucgcGCGCAUCAGguCGCGGCa -3'
miRNA:   3'- -GGC--UCuaCGu-----CGCGUAGUU--GUGCCGg -5'
12219 3' -53.8 NC_003309.1 + 14500 0.67 0.750914
Target:  5'- cCCGAcGuauUGCGGCGUAUCAAgcguCAuCGGUUg -3'
miRNA:   3'- -GGCU-Cu--ACGUCGCGUAGUU----GU-GCCGG- -5'
12219 3' -53.8 NC_003309.1 + 41543 0.67 0.755075
Target:  5'- gCGAGAcaaucUGCGGCuccucgagacggaauGCggCAGCccuACGGCCg -3'
miRNA:   3'- gGCUCU-----ACGUCG---------------CGuaGUUG---UGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 24050 0.67 0.76128
Target:  5'- aUCGAuaguUGCuuGCGUGcUCGACACGGCUc -3'
miRNA:   3'- -GGCUcu--ACGu-CGCGU-AGUUGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 3944 0.68 0.686556
Target:  5'- uCCGAuGcgGCAGC-CAUCuGCGC-GCCg -3'
miRNA:   3'- -GGCU-CuaCGUCGcGUAGuUGUGcCGG- -5'
12219 3' -53.8 NC_003309.1 + 35600 0.68 0.653506
Target:  5'- aCGAgGAUGU-GCGCAUCGACA-GGUUc -3'
miRNA:   3'- gGCU-CUACGuCGCGUAGUUGUgCCGG- -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.