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
28066 3' -51.8 NC_005887.1 + 6469 0.66 0.844141
Target:  5'- uGAAGUacgggcgCGGcgucGCGGUGucUGCCGAGCg -3'
miRNA:   3'- -CUUCAaaa----GUC----UGCCGCu-GCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 1087 0.72 0.518329
Target:  5'- -cAGg--UC-GACGGCgccauugccGACGCCGAGCa -3'
miRNA:   3'- cuUCaaaAGuCUGCCG---------CUGCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 6430 0.72 0.475318
Target:  5'- --uGUggcCGGACGGCcGCGCCGAGa -3'
miRNA:   3'- cuuCAaaaGUCUGCCGcUGCGGCUCg -5'
28066 3' -51.8 NC_005887.1 + 11964 1.01 0.006028
Target:  5'- cGAAGUUUUCAGA-GGCGACGCCGAGCg -3'
miRNA:   3'- -CUUCAAAAGUCUgCCGCUGCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 16384 0.66 0.816044
Target:  5'- cGAAGUgucgaAGAugcuCGGCGucUGCCGGGCc -3'
miRNA:   3'- -CUUCAaaag-UCU----GCCGCu-GCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 14151 0.66 0.816044
Target:  5'- --------gAGACGcGCGGCGCUGAuGCg -3'
miRNA:   3'- cuucaaaagUCUGC-CGCUGCGGCU-CG- -5'
28066 3' -51.8 NC_005887.1 + 24609 0.67 0.786067
Target:  5'- ------aUCAGcCGcGCGGCcguGCCGAGCg -3'
miRNA:   3'- cuucaaaAGUCuGC-CGCUG---CGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 25035 0.67 0.786067
Target:  5'- gGAAGUg--CAGcacGCGGUG-CGCCGAaccgGCg -3'
miRNA:   3'- -CUUCAaaaGUC---UGCCGCuGCGGCU----CG- -5'
28066 3' -51.8 NC_005887.1 + 2020 0.68 0.748067
Target:  5'- -cAGUccaUUUCGG-CGGCGAacgucuucggcauguCGUCGAGCu -3'
miRNA:   3'- cuUCA---AAAGUCuGCCGCU---------------GCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 35418 0.7 0.631123
Target:  5'- -------cCAGACGGCGcggcccAUGCCGAGUu -3'
miRNA:   3'- cuucaaaaGUCUGCCGC------UGCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 13792 0.68 0.710653
Target:  5'- -------gCGGGCGGCGACGCCuacaaauucAGCa -3'
miRNA:   3'- cuucaaaaGUCUGCCGCUGCGGc--------UCG- -5'
28066 3' -51.8 NC_005887.1 + 24107 0.67 0.775712
Target:  5'- --cGUga-CGGugccCGGCGugGCCGAGg -3'
miRNA:   3'- cuuCAaaaGUCu---GCCGCugCGGCUCg -5'
28066 3' -51.8 NC_005887.1 + 29729 0.66 0.844141
Target:  5'- -cAGUggcuggUCGGGCuucuGCGucagcACGCCGAGCg -3'
miRNA:   3'- cuUCAaa----AGUCUGc---CGC-----UGCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 899 0.69 0.688161
Target:  5'- ------cUCGcGCGGCG-UGCCGAGCa -3'
miRNA:   3'- cuucaaaAGUcUGCCGCuGCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 33051 0.66 0.835003
Target:  5'- -cGGcgUUUCGGugcccguaaccuGCGGCGuCGCCGuGCc -3'
miRNA:   3'- cuUCa-AAAGUC------------UGCCGCuGCGGCuCG- -5'
28066 3' -51.8 NC_005887.1 + 27961 0.67 0.775712
Target:  5'- -cAGg--UCGuACGcGCGcGCGCCGAGCg -3'
miRNA:   3'- cuUCaaaAGUcUGC-CGC-UGCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 30934 0.69 0.654016
Target:  5'- --uGUUgcgcUCAGACgaugccuuGGCGGCGCCG-GCc -3'
miRNA:   3'- cuuCAAa---AGUCUG--------CCGCUGCGGCuCG- -5'
28066 3' -51.8 NC_005887.1 + 38096 0.72 0.496614
Target:  5'- cGAGcagUUCAGACuGCGuGCgGCCGAGCg -3'
miRNA:   3'- cUUCaa-AAGUCUGcCGC-UG-CGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 37201 0.66 0.825633
Target:  5'- ------aUCAG-CGGCgcgccGACGUCGGGCa -3'
miRNA:   3'- cuucaaaAGUCuGCCG-----CUGCGGCUCG- -5'
28066 3' -51.8 NC_005887.1 + 11388 0.66 0.814101
Target:  5'- cGAAGUUccucacguacgCGGGCGcCGAcaucacCGCCGAGCg -3'
miRNA:   3'- -CUUCAAaa---------GUCUGCcGCU------GCGGCUCG- -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.