miRNA display CGI


Results 21 - 40 of 49 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
28077 3' -60.2 NC_005887.1 + 33527 0.68 0.276765
Target:  5'- -uCGGCGAucacCGuGAGCGCcugcuucugGUCGGgUGCg -3'
miRNA:   3'- auGCCGCU----GC-CUCGCGa--------CAGCCgACG- -5'
28077 3' -60.2 NC_005887.1 + 3301 0.68 0.269892
Target:  5'- -cCGGCGACGcAGCuCUGgcaUCGGCUGa -3'
miRNA:   3'- auGCCGCUGCcUCGcGAC---AGCCGACg -5'
28077 3' -60.2 NC_005887.1 + 34105 0.69 0.256559
Target:  5'- aGCGGUGACGccGAGCGC--UCGGCa-- -3'
miRNA:   3'- aUGCCGCUGC--CUCGCGacAGCCGacg -5'
28077 3' -60.2 NC_005887.1 + 28326 0.69 0.250097
Target:  5'- cUGCGcCGGCGGcGCGCcGgCGGUUGCg -3'
miRNA:   3'- -AUGCcGCUGCCuCGCGaCaGCCGACG- -5'
28077 3' -60.2 NC_005887.1 + 35259 0.69 0.243771
Target:  5'- cACGcGCGAUuccguguucaGGAGCGC-GUCGGUgcgcUGCa -3'
miRNA:   3'- aUGC-CGCUG----------CCUCGCGaCAGCCG----ACG- -5'
28077 3' -60.2 NC_005887.1 + 7212 0.69 0.237578
Target:  5'- cGCGuGCG-CaG-GCGCUGUCGGCgucggGCg -3'
miRNA:   3'- aUGC-CGCuGcCuCGCGACAGCCGa----CG- -5'
28077 3' -60.2 NC_005887.1 + 22083 0.69 0.233925
Target:  5'- cACGGCGGCcgucGGGGCccuucuguggaaacuGCUGcCGGgUGCg -3'
miRNA:   3'- aUGCCGCUG----CCUCG---------------CGACaGCCgACG- -5'
28077 3' -60.2 NC_005887.1 + 6291 0.69 0.225587
Target:  5'- gACGGCGuGCGcGAGCGC-GUCgaGGCcuUGCg -3'
miRNA:   3'- aUGCCGC-UGC-CUCGCGaCAG--CCG--ACG- -5'
28077 3' -60.2 NC_005887.1 + 13372 0.7 0.219786
Target:  5'- -cCGGCGAUGGcgcucGCGCUGaaGGCcgGCg -3'
miRNA:   3'- auGCCGCUGCCu----CGCGACagCCGa-CG- -5'
28077 3' -60.2 NC_005887.1 + 18929 0.7 0.219786
Target:  5'- gGCGGCugcGACGagcugaucGAcGCGCUGcugCGGCUGCc -3'
miRNA:   3'- aUGCCG---CUGC--------CU-CGCGACa--GCCGACG- -5'
28077 3' -60.2 NC_005887.1 + 16690 0.7 0.219786
Target:  5'- gAUGGCGAC---GCGCUG-CGGCUGg -3'
miRNA:   3'- aUGCCGCUGccuCGCGACaGCCGACg -5'
28077 3' -60.2 NC_005887.1 + 34241 0.7 0.214113
Target:  5'- aGCGGCGccuCGGcgAGCGCgg-CGaGCUGCg -3'
miRNA:   3'- aUGCCGCu--GCC--UCGCGacaGC-CGACG- -5'
28077 3' -60.2 NC_005887.1 + 30702 0.7 0.203144
Target:  5'- -uCGGCGAgcaGGuGCGCgagcagcuUGUCGcGCUGCg -3'
miRNA:   3'- auGCCGCUg--CCuCGCG--------ACAGC-CGACG- -5'
28077 3' -60.2 NC_005887.1 + 34939 0.7 0.196278
Target:  5'- gGCGGCGGCGGGuGCGaccguggcgaucgucGUCGGCgaGCu -3'
miRNA:   3'- aUGCCGCUGCCU-CGCga-------------CAGCCGa-CG- -5'
28077 3' -60.2 NC_005887.1 + 41361 0.71 0.182176
Target:  5'- cACGGCGGcCGGcaauuuGCGCgUGUCGGCgaucaccucgugcUGCa -3'
miRNA:   3'- aUGCCGCU-GCCu-----CGCG-ACAGCCG-------------ACG- -5'
28077 3' -60.2 NC_005887.1 + 27404 0.71 0.173125
Target:  5'- uUGCGGCGcgucguACGGcAGCGCg--CGGCgUGCg -3'
miRNA:   3'- -AUGCCGC------UGCC-UCGCGacaGCCG-ACG- -5'
28077 3' -60.2 NC_005887.1 + 27702 0.71 0.172659
Target:  5'- -cCGGCGACGGGcagcaccGCGC---CGGCUGCc -3'
miRNA:   3'- auGCCGCUGCCU-------CGCGacaGCCGACG- -5'
28077 3' -60.2 NC_005887.1 + 23245 0.71 0.168069
Target:  5'- aGCGGCGGCGGucggcgcgcaaaaGGCGCagcucgUGgCGGUUGCc -3'
miRNA:   3'- aUGCCGCUGCC-------------UCGCG------ACaGCCGACG- -5'
28077 3' -60.2 NC_005887.1 + 11376 0.72 0.159649
Target:  5'- cGCgGGCGucagcgcagcCGGAGCGCUGgCGGCcgGCg -3'
miRNA:   3'- aUG-CCGCu---------GCCUCGCGACaGCCGa-CG- -5'
28077 3' -60.2 NC_005887.1 + 26101 0.72 0.159648
Target:  5'- -uCGGCGACGGugcccguGCGCUcGcCGGCcgGCg -3'
miRNA:   3'- auGCCGCUGCCu------CGCGA-CaGCCGa-CG- -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.