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 + 54747 0.74 0.198778
Target:  5'- cGCGCCgUCUUCGCCGCGU--GACagUCAc -3'
miRNA:   3'- -UGCGG-AGAAGCGGCGCGagCUGa-AGU- -5'
24939 3' -57.1 NC_005284.1 + 53497 0.73 0.238692
Target:  5'- cCGCCggUUCGCCGCGCggGGCUUUu -3'
miRNA:   3'- uGCGGagAAGCGGCGCGagCUGAAGu -5'
24939 3' -57.1 NC_005284.1 + 49092 0.7 0.354805
Target:  5'- cCGCUcg-UCGCCGUGCUgucUGACUUCAc -3'
miRNA:   3'- uGCGGagaAGCGGCGCGA---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 + 45690 0.69 0.407552
Target:  5'- cACGCCUUcaCGaCCGCGCgUCGACa--- -3'
miRNA:   3'- -UGCGGAGaaGC-GGCGCG-AGCUGaagu -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 + 44938 0.69 0.435703
Target:  5'- cGCGCCUCgguguaUCGCC-CGC-CGuGCUUCGg -3'
miRNA:   3'- -UGCGGAGa-----AGCGGcGCGaGC-UGAAGU- -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 + 38166 0.66 0.612109
Target:  5'- uCGCgUCUUCGuCCGCGCgacgagccacaUCGGCa--- -3'
miRNA:   3'- uGCGgAGAAGC-GGCGCG-----------AGCUGaagu -5'
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 + 35449 0.69 0.435703
Target:  5'- -aGCCUUgUUCGUCGCGCUgGAUcUCGc -3'
miRNA:   3'- ugCGGAG-AAGCGGCGCGAgCUGaAGU- -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 + 26669 1.08 0.000748
Target:  5'- aACGCCUCUUCGCCGCGCUCGACUUCAa -3'
miRNA:   3'- -UGCGGAGAAGCGGCGCGAGCUGAAGU- -5'
24939 3' -57.1 NC_005284.1 + 21607 0.72 0.278049
Target:  5'- aGCGUugggcaagauCUCgcgCGCCGCGCUCGACg--- -3'
miRNA:   3'- -UGCG----------GAGaa-GCGGCGCGAGCUGaagu -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 + 15490 0.67 0.536794
Target:  5'- uCGCCgagcgCggCGUCGCGUUaccCGACUUCGa -3'
miRNA:   3'- uGCGGa----GaaGCGGCGCGA---GCUGAAGU- -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 + 14759 0.75 0.188492
Target:  5'- cACG-CUC-UCGUCGcCGCUCGACUUCGg -3'
miRNA:   3'- -UGCgGAGaAGCGGC-GCGAGCUGAAGU- -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 + 11344 0.66 0.579561
Target:  5'- cCGCCcccCUUCGCCGCGCgagCcGCUg-- -3'
miRNA:   3'- uGCGGa--GAAGCGGCGCGa--GcUGAagu -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.