miRNA display CGI


Results 1 - 20 of 81 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
32068 3' -57.6 NC_007016.1 + 82114 0.67 0.729563
Target:  5'- uGCaCGGCGcauGGCucucuGGuaCCGGgGAGCGGGCa -3'
miRNA:   3'- -CG-GUCGU---UCGu----CC--GGUCgUUCGUCCG- -5'
32068 3' -57.6 NC_007016.1 + 119916 0.68 0.660929
Target:  5'- cGCUAGguGGCGGGCUAuuuugaucaggccgcGCAcgcauugaccguuAGguGGCg -3'
miRNA:   3'- -CGGUCguUCGUCCGGU---------------CGU-------------UCguCCG- -5'
32068 3' -57.6 NC_007016.1 + 55389 0.68 0.667161
Target:  5'- cGCCAGCccGGUgcgguuaacguaaGGGUCAGCGAGCcaaacauGGUg -3'
miRNA:   3'- -CGGUCGu-UCG-------------UCCGGUCGUUCGu------CCG- -5'
32068 3' -57.6 NC_007016.1 + 22334 0.68 0.678556
Target:  5'- cGCCGGgucAGCAcGGgCAGCGAG-GGGCa -3'
miRNA:   3'- -CGGUCgu-UCGU-CCgGUCGUUCgUCCG- -5'
32068 3' -57.6 NC_007016.1 + 22412 0.68 0.678556
Target:  5'- cGCguGUuuuGCGGGCCGGgGucGGCAcGGCc -3'
miRNA:   3'- -CGguCGuu-CGUCCGGUCgU--UCGU-CCG- -5'
32068 3' -57.6 NC_007016.1 + 63132 0.67 0.699144
Target:  5'- gGCCAGgGAgaaccGguGGCCGcGUGAGC-GGCa -3'
miRNA:   3'- -CGGUCgUU-----CguCCGGU-CGUUCGuCCG- -5'
32068 3' -57.6 NC_007016.1 + 45161 0.67 0.719498
Target:  5'- gGCCGGgAuauGCAGGCggUAGCA--CGGGCa -3'
miRNA:   3'- -CGGUCgUu--CGUCCG--GUCGUucGUCCG- -5'
32068 3' -57.6 NC_007016.1 + 82625 0.67 0.719498
Target:  5'- cGUaGGCAAGgGGGCgGGCA-GC-GGCa -3'
miRNA:   3'- -CGgUCGUUCgUCCGgUCGUuCGuCCG- -5'
32068 3' -57.6 NC_007016.1 + 125594 0.67 0.719498
Target:  5'- uGCCGGU--GCGcGCCAGCu-GCuGGCa -3'
miRNA:   3'- -CGGUCGuuCGUcCGGUCGuuCGuCCG- -5'
32068 3' -57.6 NC_007016.1 + 19539 0.68 0.647401
Target:  5'- uCCAGC-GGCAGucgggggaggcGCCAGCGuagGGCuGGCc -3'
miRNA:   3'- cGGUCGuUCGUC-----------CGGUCGU---UCGuCCG- -5'
32068 3' -57.6 NC_007016.1 + 129887 0.68 0.626553
Target:  5'- gGCCccCAGGCGcccGGCCGGCG-GCGGcGCg -3'
miRNA:   3'- -CGGucGUUCGU---CCGGUCGUuCGUC-CG- -5'
32068 3' -57.6 NC_007016.1 + 21376 0.69 0.605722
Target:  5'- uGCCAGacucCAGGCCuucgucggaAGCAucgucaAGCAGGCu -3'
miRNA:   3'- -CGGUCguucGUCCGG---------UCGU------UCGUCCG- -5'
32068 3' -57.6 NC_007016.1 + 22798 0.76 0.252617
Target:  5'- gGCCAgagacGCGAGCAccgcgagcGGCCGGCAGGU-GGCg -3'
miRNA:   3'- -CGGU-----CGUUCGU--------CCGGUCGUUCGuCCG- -5'
32068 3' -57.6 NC_007016.1 + 26229 0.75 0.271682
Target:  5'- aCCGGCugcguGGCAaGGCCGGCGuGguGGCu -3'
miRNA:   3'- cGGUCGu----UCGU-CCGGUCGUuCguCCG- -5'
32068 3' -57.6 NC_007016.1 + 107274 0.72 0.413759
Target:  5'- cGCCAGUucucgcAGCgAGGCCAGCAgucccgcguccgaagGGCccAGGCc -3'
miRNA:   3'- -CGGUCGu-----UCG-UCCGGUCGU---------------UCG--UCCG- -5'
32068 3' -57.6 NC_007016.1 + 686 0.7 0.513813
Target:  5'- cGCCgGGCAAGCGGcCCAGaucugcccGGCAGGUc -3'
miRNA:   3'- -CGG-UCGUUCGUCcGGUCgu------UCGUCCG- -5'
32068 3' -57.6 NC_007016.1 + 90370 0.7 0.533837
Target:  5'- cGUCAGCAAgGCuaucuGUCAGCG-GCAGGCc -3'
miRNA:   3'- -CGGUCGUU-CGuc---CGGUCGUuCGUCCG- -5'
32068 3' -57.6 NC_007016.1 + 15973 0.7 0.554132
Target:  5'- aGCUGGCGAGCAGGU--GCGAGgagcugcccCAGGUg -3'
miRNA:   3'- -CGGUCGUUCGUCCGguCGUUC---------GUCCG- -5'
32068 3' -57.6 NC_007016.1 + 117517 0.7 0.554132
Target:  5'- gGCgCAGCGGcGCcgAGGCuaaaCAGCGcGCAGGCg -3'
miRNA:   3'- -CG-GUCGUU-CG--UCCG----GUCGUuCGUCCG- -5'
32068 3' -57.6 NC_007016.1 + 126223 0.69 0.584973
Target:  5'- gGCgCAGUAGGUcuGGGCCAuaGGGUAGGg -3'
miRNA:   3'- -CG-GUCGUUCG--UCCGGUcgUUCGUCCg -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.