miRNA display CGI


Results 1 - 20 of 53 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
30531 3' -57.2 NC_006548.1 + 20995 1.12 0.000199
Target:  5'- gUGCUCACGCCAUUGCAGCGCGAGCGCa -3'
miRNA:   3'- -ACGAGUGCGGUAACGUCGCGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 6517 0.79 0.064861
Target:  5'- gUGCaCGCGCCAggGCGGCGCGGGUuacggGCu -3'
miRNA:   3'- -ACGaGUGCGGUaaCGUCGCGCUCG-----CG- -5'
30531 3' -57.2 NC_006548.1 + 10179 0.76 0.097859
Target:  5'- gGCcCACGCa---GCaAGCGCGAGCGCa -3'
miRNA:   3'- aCGaGUGCGguaaCG-UCGCGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 22960 0.74 0.134339
Target:  5'- gGcCUCAaggacCGCUucaucgUGCAGCGCGAGCGUc -3'
miRNA:   3'- aC-GAGU-----GCGGua----ACGUCGCGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 12810 0.74 0.134339
Target:  5'- uUGCU--CGCCAgUGCcGCGCGAGCGg -3'
miRNA:   3'- -ACGAguGCGGUaACGuCGCGCUCGCg -5'
30531 3' -57.2 NC_006548.1 + 17778 0.74 0.139796
Target:  5'- cUGCUCcuggaaggagagucCGCCGUaUGCGGCGCGGGUGg -3'
miRNA:   3'- -ACGAGu-------------GCGGUA-ACGUCGCGCUCGCg -5'
30531 3' -57.2 NC_006548.1 + 12933 0.74 0.142196
Target:  5'- gGCUCGCGCUgagcgcggUGCuGUGCG-GCGCa -3'
miRNA:   3'- aCGAGUGCGGua------ACGuCGCGCuCGCG- -5'
30531 3' -57.2 NC_006548.1 + 27201 0.74 0.14628
Target:  5'- gUGCUCGCGuCCAgcagGCGGCGacCGAGCa- -3'
miRNA:   3'- -ACGAGUGC-GGUaa--CGUCGC--GCUCGcg -5'
30531 3' -57.2 NC_006548.1 + 19120 0.74 0.14628
Target:  5'- gUGCUCaACGCgg--GCAGCGC-AGCGCu -3'
miRNA:   3'- -ACGAG-UGCGguaaCGUCGCGcUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 10119 0.74 0.14628
Target:  5'- cGCUCGCGCU--UGCuGCGUGGGC-Ca -3'
miRNA:   3'- aCGAGUGCGGuaACGuCGCGCUCGcG- -5'
30531 3' -57.2 NC_006548.1 + 32706 0.74 0.15477
Target:  5'- aGUUCuACGCaga-GgGGCGCGAGCGCg -3'
miRNA:   3'- aCGAG-UGCGguaaCgUCGCGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 19915 0.73 0.176992
Target:  5'- gGCuuuuUCAUGCCGcccagagugagGCGGCGUGAGUGCa -3'
miRNA:   3'- aCG----AGUGCGGUaa---------CGUCGCGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 7320 0.73 0.177977
Target:  5'- aGCUacagaGCGCCGgucagggGCAGCGCacGGCGCu -3'
miRNA:   3'- aCGAg----UGCGGUaa-----CGUCGCGc-UCGCG- -5'
30531 3' -57.2 NC_006548.1 + 20737 0.72 0.198718
Target:  5'- uUGCUCGCGCUcgUcgaGCuGGCGUuGGCGCu -3'
miRNA:   3'- -ACGAGUGCGGuaA---CG-UCGCGcUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 21285 0.72 0.198718
Target:  5'- gUGCUgAUGCCGaucaGCAGCGC-AGUGCu -3'
miRNA:   3'- -ACGAgUGCGGUaa--CGUCGCGcUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 32415 0.72 0.203666
Target:  5'- aGCcgUCGcCGCCGUUGCcguucgcGGCGCugcagGAGCGCa -3'
miRNA:   3'- aCG--AGU-GCGGUAACG-------UCGCG-----CUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 8006 0.71 0.246543
Target:  5'- cGCgcagCGCGCCGgaugaUGCAG-GCG-GCGCu -3'
miRNA:   3'- aCGa---GUGCGGUa----ACGUCgCGCuCGCG- -5'
30531 3' -57.2 NC_006548.1 + 27390 0.7 0.259903
Target:  5'- cUGCUCG-GCCAg-GCgAGCGagaGAGCGCu -3'
miRNA:   3'- -ACGAGUgCGGUaaCG-UCGCg--CUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 21058 0.7 0.266802
Target:  5'- cGCUCGCGC---UGCaauGGCGUGAGCa- -3'
miRNA:   3'- aCGAGUGCGguaACG---UCGCGCUCGcg -5'
30531 3' -57.2 NC_006548.1 + 19396 0.7 0.281042
Target:  5'- aGCUCGCuGCCGUccagcugGUAGCGCagcagguuGCGCa -3'
miRNA:   3'- aCGAGUG-CGGUAa------CGUCGCGcu------CGCG- -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.