miRNA display CGI


Results 1 - 20 of 36 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
25532 3' -51.5 NC_005337.1 + 104555 0.66 0.989842
Target:  5'- uCUUCUgCGAGCGCG-UGCUcuacgaccccgaGAcGGACGa -3'
miRNA:   3'- -GAAGA-GCUUGUGCcACGA------------CUaCCUGC- -5'
25532 3' -51.5 NC_005337.1 + 89937 0.66 0.988432
Target:  5'- -gUCUUcAGCGCGGcGUUGAUGG-CGu -3'
miRNA:   3'- gaAGAGcUUGUGCCaCGACUACCuGC- -5'
25532 3' -51.5 NC_005337.1 + 108005 0.66 0.988432
Target:  5'- aCUUCUaCGAGgGCGGgcGCgUGAUGG-CGc -3'
miRNA:   3'- -GAAGA-GCUUgUGCCa-CG-ACUACCuGC- -5'
25532 3' -51.5 NC_005337.1 + 98627 0.66 0.986873
Target:  5'- gCUUCUCGAAUAUG-UGUg---GGACGa -3'
miRNA:   3'- -GAAGAGCUUGUGCcACGacuaCCUGC- -5'
25532 3' -51.5 NC_005337.1 + 74930 0.66 0.985337
Target:  5'- cCUUCgcgcgcgcggccgcgCGGAUGCGGUGCUG--GGGCu -3'
miRNA:   3'- -GAAGa--------------GCUUGUGCCACGACuaCCUGc -5'
25532 3' -51.5 NC_005337.1 + 44899 0.66 0.985158
Target:  5'- ---aUgGAgGCACGGUGCUGcgGGAg- -3'
miRNA:   3'- gaagAgCU-UGUGCCACGACuaCCUgc -5'
25532 3' -51.5 NC_005337.1 + 22650 0.66 0.985158
Target:  5'- cCUUCggcgCGGACGCGcG-GCUGcgGGAgCGc -3'
miRNA:   3'- -GAAGa---GCUUGUGC-CaCGACuaCCU-GC- -5'
25532 3' -51.5 NC_005337.1 + 60221 0.66 0.983277
Target:  5'- --gCUUGGGCGCGGggGCUGGggcugGGGuCGg -3'
miRNA:   3'- gaaGAGCUUGUGCCa-CGACUa----CCU-GC- -5'
25532 3' -51.5 NC_005337.1 + 96550 0.66 0.983277
Target:  5'- aCUUCUCGcagauGC-CGcUGCaGGUGGACGa -3'
miRNA:   3'- -GAAGAGCu----UGuGCcACGaCUACCUGC- -5'
25532 3' -51.5 NC_005337.1 + 92003 0.66 0.983277
Target:  5'- gCUUCUCcagcccgucgagGAACAUGGaguccaGCgGGUGGACGu -3'
miRNA:   3'- -GAAGAG------------CUUGUGCCa-----CGaCUACCUGC- -5'
25532 3' -51.5 NC_005337.1 + 115196 0.66 0.982065
Target:  5'- -cUCcUGGACACGGUgccgcugcgggcgcuGCUGAagaUGGGCGc -3'
miRNA:   3'- gaAGaGCUUGUGCCA---------------CGACU---ACCUGC- -5'
25532 3' -51.5 NC_005337.1 + 3277 0.66 0.981222
Target:  5'- -aUCUCGGACaugccguuGCGGUGCUcGAa-GACGa -3'
miRNA:   3'- gaAGAGCUUG--------UGCCACGA-CUacCUGC- -5'
25532 3' -51.5 NC_005337.1 + 18443 0.66 0.981222
Target:  5'- --cCUUGAGCACGG-GC-GggGGACu -3'
miRNA:   3'- gaaGAGCUUGUGCCaCGaCuaCCUGc -5'
25532 3' -51.5 NC_005337.1 + 4901 0.66 0.981222
Target:  5'- --gCUCGGAgaACGG-GC-GGUGGACGa -3'
miRNA:   3'- gaaGAGCUUg-UGCCaCGaCUACCUGC- -5'
25532 3' -51.5 NC_005337.1 + 91071 0.66 0.980789
Target:  5'- uCUUCgCGAaggacgGCGCGGUGaccgugcucggGAUGGGCGu -3'
miRNA:   3'- -GAAGaGCU------UGUGCCACga---------CUACCUGC- -5'
25532 3' -51.5 NC_005337.1 + 96386 0.67 0.978982
Target:  5'- ----gCGAGCACGGg---GGUGGACGu -3'
miRNA:   3'- gaagaGCUUGUGCCacgaCUACCUGC- -5'
25532 3' -51.5 NC_005337.1 + 49248 0.67 0.976551
Target:  5'- --aCUCGAcccGCGaGGgcucGCUGGUGGACa -3'
miRNA:   3'- gaaGAGCU---UGUgCCa---CGACUACCUGc -5'
25532 3' -51.5 NC_005337.1 + 67900 0.67 0.968026
Target:  5'- --gCUCGAA-GCGGUGgaGccGGACGg -3'
miRNA:   3'- gaaGAGCUUgUGCCACgaCuaCCUGC- -5'
25532 3' -51.5 NC_005337.1 + 121564 0.68 0.964749
Target:  5'- --cCUCGAGCGCGGcGCgcgcgcGGACGc -3'
miRNA:   3'- gaaGAGCUUGUGCCaCGacua--CCUGC- -5'
25532 3' -51.5 NC_005337.1 + 57473 0.68 0.961244
Target:  5'- -aUCaagCGcGCGCaccucacugaGGUGCUGGUGGACa -3'
miRNA:   3'- gaAGa--GCuUGUG----------CCACGACUACCUGc -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.