miRNA display CGI


Results 1 - 20 of 29 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
24939 3' -57.1 NC_005284.1 + 37167 0.66 0.633907
Target:  5'- gACGCC-CUgaaucUCGCCgGCGCgUCGAUggCGg -3'
miRNA:   3'- -UGCGGaGA-----AGCGG-CGCG-AGCUGaaGU- -5'
24939 3' -57.1 NC_005284.1 + 6163 0.66 0.623004
Target:  5'- -aGCaagCUCUUCGCCcCGCUCGGaagUUCGg -3'
miRNA:   3'- ugCG---GAGAAGCGGcGCGAGCUg--AAGU- -5'
24939 3' -57.1 NC_005284.1 + 30129 0.66 0.612109
Target:  5'- cACGUCgaCUgcaCGCCGCGCgCGACUg-- -3'
miRNA:   3'- -UGCGGa-GAa--GCGGCGCGaGCUGAagu -5'
24939 3' -57.1 NC_005284.1 + 38166 0.66 0.612109
Target:  5'- uCGCgUCUUCGuCCGCGCgacgagccacaUCGGCa--- -3'
miRNA:   3'- uGCGgAGAAGC-GGCGCG-----------AGCUGaagu -5'
24939 3' -57.1 NC_005284.1 + 8230 0.66 0.601231
Target:  5'- cCGCUUCcugaugUCGCuCGCGCUgCGGCUcggCAa -3'
miRNA:   3'- uGCGGAGa-----AGCG-GCGCGA-GCUGAa--GU- -5'
24939 3' -57.1 NC_005284.1 + 11344 0.66 0.579561
Target:  5'- cCGCCcccCUUCGCCGCGCgagCcGCUg-- -3'
miRNA:   3'- uGCGGa--GAAGCGGCGCGa--GcUGAagu -5'
24939 3' -57.1 NC_005284.1 + 47736 0.67 0.547395
Target:  5'- aACGCCUgaacCUUCGCgCGuUGCUCGucgggcgacaGCUUCGc -3'
miRNA:   3'- -UGCGGA----GAAGCG-GC-GCGAGC----------UGAAGU- -5'
24939 3' -57.1 NC_005284.1 + 11868 0.67 0.536794
Target:  5'- cCGCCUCggcCGUguugaUGCGCUCGAUcUCGg -3'
miRNA:   3'- uGCGGAGaa-GCG-----GCGCGAGCUGaAGU- -5'
24939 3' -57.1 NC_005284.1 + 41945 0.67 0.536794
Target:  5'- uGCGCCaCUgaugauugUCGUCGCGCgUCuACUUCAg -3'
miRNA:   3'- -UGCGGaGA--------AGCGGCGCG-AGcUGAAGU- -5'
24939 3' -57.1 NC_005284.1 + 15490 0.67 0.536794
Target:  5'- uCGCCgagcgCggCGUCGCGUUaccCGACUUCGa -3'
miRNA:   3'- uGCGGa----GaaGCGGCGCGA---GCUGAAGU- -5'
24939 3' -57.1 NC_005284.1 + 15565 0.67 0.526265
Target:  5'- aACGCga---CGCCGCGCUCGGCg--- -3'
miRNA:   3'- -UGCGgagaaGCGGCGCGAGCUGaagu -5'
24939 3' -57.1 NC_005284.1 + 15219 0.67 0.526265
Target:  5'- aGCGCacguauaUC-UCGCCGCuCUCGGuCUUCAc -3'
miRNA:   3'- -UGCGg------AGaAGCGGCGcGAGCU-GAAGU- -5'
24939 3' -57.1 NC_005284.1 + 45145 0.68 0.505449
Target:  5'- aGCGCgUa---GCCGCGCUCGcccgcccacGCUUCGa -3'
miRNA:   3'- -UGCGgAgaagCGGCGCGAGC---------UGAAGU- -5'
24939 3' -57.1 NC_005284.1 + 8582 0.68 0.495174
Target:  5'- uCGCCUaCUUCGCCauGCGCaucagggCGGCUUgAa -3'
miRNA:   3'- uGCGGA-GAAGCGG--CGCGa------GCUGAAgU- -5'
24939 3' -57.1 NC_005284.1 + 9905 0.68 0.464944
Target:  5'- cGCGCCgaagCgUCGCuCGCGCUCGcGCagCAg -3'
miRNA:   3'- -UGCGGa---GaAGCG-GCGCGAGC-UGaaGU- -5'
24939 3' -57.1 NC_005284.1 + 9827 0.69 0.445333
Target:  5'- uCGCCUCgacCGcCCGCGCUuCGgcaaGCUUCGc -3'
miRNA:   3'- uGCGGAGaa-GC-GGCGCGA-GC----UGAAGU- -5'
24939 3' -57.1 NC_005284.1 + 44938 0.69 0.435703
Target:  5'- cGCGCCUCgguguaUCGCC-CGC-CGuGCUUCGg -3'
miRNA:   3'- -UGCGGAGa-----AGCGGcGCGaGC-UGAAGU- -5'
24939 3' -57.1 NC_005284.1 + 35449 0.69 0.435703
Target:  5'- -aGCCUUgUUCGUCGCGCUgGAUcUCGc -3'
miRNA:   3'- ugCGGAG-AAGCGGCGCGAgCUGaAGU- -5'
24939 3' -57.1 NC_005284.1 + 10717 0.69 0.435703
Target:  5'- cGCGCagcgCUUCGCCGCcGCUCGuCg--- -3'
miRNA:   3'- -UGCGga--GAAGCGGCG-CGAGCuGaagu -5'
24939 3' -57.1 NC_005284.1 + 45690 0.69 0.407552
Target:  5'- cACGCCUUcaCGaCCGCGCgUCGACa--- -3'
miRNA:   3'- -UGCGGAGaaGC-GGCGCG-AGCUGaagu -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.