miRNA display CGI


Results 1 - 20 of 23 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
21201 3' -53.1 NC_004778.3 + 76365 0.66 0.967553
Target:  5'- gUUGCUgcggCGGCGgUUGcUGCG-GCGGCg -3'
miRNA:   3'- -AGCGAa---GCUGCgAACcACGCuUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 76335 0.66 0.967553
Target:  5'- gUUGCUguggCGGCGgUUGcUGCG-GCGGCg -3'
miRNA:   3'- -AGCGAa---GCUGCgAACcACGCuUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 91280 0.66 0.967553
Target:  5'- gCGCggguagCGugGa--GGUGuCGAGCGGCg -3'
miRNA:   3'- aGCGaa----GCugCgaaCCAC-GCUUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 109958 0.66 0.964262
Target:  5'- uUUGCacgUCGGCGCgcccauuacGUGCG-ACGACa -3'
miRNA:   3'- -AGCGa--AGCUGCGaac------CACGCuUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 46982 0.66 0.964262
Target:  5'- gCGCUcacgcCGACGCgcuuGUGCGAAucauCGACg -3'
miRNA:   3'- aGCGAa----GCUGCGaac-CACGCUU----GCUG- -5'
21201 3' -53.1 NC_004778.3 + 118774 0.67 0.948775
Target:  5'- aCGCUUCgGGCGC--GGcGCGGcCGGCg -3'
miRNA:   3'- aGCGAAG-CUGCGaaCCaCGCUuGCUG- -5'
21201 3' -53.1 NC_004778.3 + 10244 0.67 0.948775
Target:  5'- cUGCUgaacugcgUGugGCUUGGcGUGGACGGg -3'
miRNA:   3'- aGCGAa-------GCugCGAACCaCGCUUGCUg -5'
21201 3' -53.1 NC_004778.3 + 40744 0.67 0.948775
Target:  5'- gCGCacgCGcCGCUUGcUGCGcGGCGACa -3'
miRNA:   3'- aGCGaa-GCuGCGAACcACGC-UUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 107267 0.67 0.939576
Target:  5'- -gGCUUCGGCGuUUUGcGUGCaauuaAACGACc -3'
miRNA:   3'- agCGAAGCUGC-GAAC-CACGc----UUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 53293 0.67 0.939576
Target:  5'- -aGCagCGACGCUcuUGaGUGCGAA-GACc -3'
miRNA:   3'- agCGaaGCUGCGA--AC-CACGCUUgCUG- -5'
21201 3' -53.1 NC_004778.3 + 104169 0.67 0.931498
Target:  5'- gCGUUUUGcaaaguggagauuauGCGC-UGGgagGCGGGCGACg -3'
miRNA:   3'- aGCGAAGC---------------UGCGaACCa--CGCUUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 71676 0.67 0.9239
Target:  5'- aCGUgu-GGCGCUUGGcgcgGCGGGCGuCg -3'
miRNA:   3'- aGCGaagCUGCGAACCa---CGCUUGCuG- -5'
21201 3' -53.1 NC_004778.3 + 16956 0.68 0.917583
Target:  5'- -gGCUcgaguucUCGGcCGC-UGGcGCGAGCGACu -3'
miRNA:   3'- agCGA-------AGCU-GCGaACCaCGCUUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 98184 0.68 0.912188
Target:  5'- aCGCaaguuucUCGGCGCgaGGUGCGcGCGcCa -3'
miRNA:   3'- aGCGa------AGCUGCGaaCCACGCuUGCuG- -5'
21201 3' -53.1 NC_004778.3 + 40516 0.68 0.902098
Target:  5'- gCGCUUCGACGCc-GGcGCGucgcauucauuggcGCGACu -3'
miRNA:   3'- aGCGAAGCUGCGaaCCaCGCu-------------UGCUG- -5'
21201 3' -53.1 NC_004778.3 + 99918 0.68 0.899477
Target:  5'- gUGCgaguauugCGGCGUUguaauuaaaaacUGGUGCGAagACGACa -3'
miRNA:   3'- aGCGaa------GCUGCGA------------ACCACGCU--UGCUG- -5'
21201 3' -53.1 NC_004778.3 + 32922 0.69 0.885787
Target:  5'- cCGCa--GACGCgaaacacugugUUGG-GCGGACGACa -3'
miRNA:   3'- aGCGaagCUGCG-----------AACCaCGCUUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 96773 0.69 0.863489
Target:  5'- -aGCUgccgCGGCGCgUGGUGCGuAAUGuGCa -3'
miRNA:   3'- agCGAa---GCUGCGaACCACGC-UUGC-UG- -5'
21201 3' -53.1 NC_004778.3 + 117399 0.7 0.829852
Target:  5'- aUGUUUCGAgGCcgUGGUGUccgacaaGAGCGGCu -3'
miRNA:   3'- aGCGAAGCUgCGa-ACCACG-------CUUGCUG- -5'
21201 3' -53.1 NC_004778.3 + 82657 0.71 0.785526
Target:  5'- -aGCggacUUGGCGCUUGGcGCGGGCGcCa -3'
miRNA:   3'- agCGa---AGCUGCGAACCaCGCUUGCuG- -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.