miRNA display CGI


Results 1 - 20 of 71 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
11405 3' -62.7 NC_003085.1 + 48529 1.09 0.000201
Target:  5'- gCACCCGGACGCGGCCGACGCUCCAGGa -3'
miRNA:   3'- -GUGGGCCUGCGCCGGCUGCGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 12412 0.8 0.038409
Target:  5'- gACCCGG-CGgGGCCGcuGCGCUCCgAGGa -3'
miRNA:   3'- gUGGGCCuGCgCCGGC--UGCGAGG-UCC- -5'
11405 3' -62.7 NC_003085.1 + 11289 0.76 0.068554
Target:  5'- gGCCCGGcuucggaaGCGCGcGCUGGCGCUUguGGa -3'
miRNA:   3'- gUGGGCC--------UGCGC-CGGCUGCGAGguCC- -5'
11405 3' -62.7 NC_003085.1 + 12167 0.76 0.072403
Target:  5'- -gUCUGGA-GUGGCCGugGUUCCAGGu -3'
miRNA:   3'- guGGGCCUgCGCCGGCugCGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 31496 0.75 0.078569
Target:  5'- gGCCC--GCGCuGCCGGCGCUUCAGGu -3'
miRNA:   3'- gUGGGccUGCGcCGGCUGCGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 2771 0.74 0.094964
Target:  5'- uGgCCGGAagcaggcaGCGG-CGGCGCUCCAGGc -3'
miRNA:   3'- gUgGGCCUg-------CGCCgGCUGCGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 8774 0.74 0.100215
Target:  5'- gCACCCGGACGUcgucccccuGcGCCGGCGgCUCCgcgAGGu -3'
miRNA:   3'- -GUGGGCCUGCG---------C-CGGCUGC-GAGG---UCC- -5'
11405 3' -62.7 NC_003085.1 + 49037 0.74 0.108606
Target:  5'- gACUCGuaGACGCGGCCGAgacugGCgUCCAGGg -3'
miRNA:   3'- gUGGGC--CUGCGCCGGCUg----CG-AGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 48782 0.74 0.108606
Target:  5'- aGgCCGGACGCgggacagguGGCCGGCGacgUCCGGGc -3'
miRNA:   3'- gUgGGCCUGCG---------CCGGCUGCg--AGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 29740 0.72 0.130811
Target:  5'- uCGCCCaGGACGUGGCCGccgucGCGCcCCAc- -3'
miRNA:   3'- -GUGGG-CCUGCGCCGGC-----UGCGaGGUcc -5'
11405 3' -62.7 NC_003085.1 + 15259 0.72 0.130811
Target:  5'- gACCCGGAggcCGCGGCCGA-GCUCa--- -3'
miRNA:   3'- gUGGGCCU---GCGCCGGCUgCGAGgucc -5'
11405 3' -62.7 NC_003085.1 + 34186 0.71 0.154707
Target:  5'- gACgCGGGCGCGGCgggugagcucggccgCGGC-CUCCGGGu -3'
miRNA:   3'- gUGgGCCUGCGCCG---------------GCUGcGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 16953 0.71 0.161271
Target:  5'- aCACCUGGGaa-GGCUcuuccacgagauGACGCUCCGGGc -3'
miRNA:   3'- -GUGGGCCUgcgCCGG------------CUGCGAGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 666 0.71 0.169829
Target:  5'- cCGCCCGGACGUcGCCGGCcaccugucccGCgUCCGGc -3'
miRNA:   3'- -GUGGGCCUGCGcCGGCUG----------CG-AGGUCc -5'
11405 3' -62.7 NC_003085.1 + 9536 0.7 0.17879
Target:  5'- -cCCUGGuagugcacgACGCGGCCGACGCU--GGGc -3'
miRNA:   3'- guGGGCC---------UGCGCCGGCUGCGAggUCC- -5'
11405 3' -62.7 NC_003085.1 + 6917 0.7 0.183427
Target:  5'- uCGCCCGcGCGCuGGCCGAgGCgaagCGGGa -3'
miRNA:   3'- -GUGGGCcUGCG-CCGGCUgCGag--GUCC- -5'
11405 3' -62.7 NC_003085.1 + 24858 0.7 0.196479
Target:  5'- uCGCCUGGGC-CGGCaaccucaccugcagCGGCGCccaguUCCAGGg -3'
miRNA:   3'- -GUGGGCCUGcGCCG--------------GCUGCG-----AGGUCC- -5'
11405 3' -62.7 NC_003085.1 + 34334 0.7 0.203048
Target:  5'- uGCUCGucgcaccACGCGGCgCGGCGCUCCAu- -3'
miRNA:   3'- gUGGGCc------UGCGCCG-GCUGCGAGGUcc -5'
11405 3' -62.7 NC_003085.1 + 7428 0.7 0.203048
Target:  5'- cUACCCGGcuggagagaagGCGCccucguccGuGCCGACGCcgCCGGGg -3'
miRNA:   3'- -GUGGGCC-----------UGCG--------C-CGGCUGCGa-GGUCC- -5'
11405 3' -62.7 NC_003085.1 + 42082 0.7 0.203048
Target:  5'- uCACgCGGGCGCcgucGGCCucguacuggagcGGCGC-CCAGGg -3'
miRNA:   3'- -GUGgGCCUGCG----CCGG------------CUGCGaGGUCC- -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.