miRNA display CGI


Results 1 - 20 of 145 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
9158 3' -54.6 NC_002512.2 + 351 0.71 0.878308
Target:  5'- -cGCCCGGC-UCCCCG-GCGuUUCUCc -3'
miRNA:   3'- cuUGGGCUGcAGGGGCuUGC-AAGAGc -5'
9158 3' -54.6 NC_002512.2 + 3103 0.75 0.678603
Target:  5'- aGACCaCGGCGUCgCCCGAgACGUcCUCGc -3'
miRNA:   3'- cUUGG-GCUGCAG-GGGCU-UGCAaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 3574 0.66 0.979928
Target:  5'- cGAGCCaCGGCccacaggCCCCGGGgG-UCUCGg -3'
miRNA:   3'- -CUUGG-GCUGca-----GGGGCUUgCaAGAGC- -5'
9158 3' -54.6 NC_002512.2 + 3710 0.72 0.825358
Target:  5'- cGACCCGGuCGcUCCCCGGGuCGgaCUCGu -3'
miRNA:   3'- cUUGGGCU-GC-AGGGGCUU-GCaaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 3823 0.68 0.945415
Target:  5'- --cCCCuACGUCCCCGAuccccuggACGUUCg-- -3'
miRNA:   3'- cuuGGGcUGCAGGGGCU--------UGCAAGagc -5'
9158 3' -54.6 NC_002512.2 + 4308 0.69 0.915826
Target:  5'- aGACCCGGCGcCCCuCGAGguCGgcCUCGu -3'
miRNA:   3'- cUUGGGCUGCaGGG-GCUU--GCaaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 5685 0.71 0.878308
Target:  5'- --cCCCGGCGUCCCCGcgucCGUgugugugugUCUCu -3'
miRNA:   3'- cuuGGGCUGCAGGGGCuu--GCA---------AGAGc -5'
9158 3' -54.6 NC_002512.2 + 6099 0.72 0.800078
Target:  5'- ---gCCGACGUCCCCGGcgACGUccgguccCUCGa -3'
miRNA:   3'- cuugGGCUGCAGGGGCU--UGCAa------GAGC- -5'
9158 3' -54.6 NC_002512.2 + 9575 0.66 0.983645
Target:  5'- gGAGCCCGGC--CCCCGGccccccgGCGg-CUCGg -3'
miRNA:   3'- -CUUGGGCUGcaGGGGCU-------UGCaaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 12781 0.66 0.979928
Target:  5'- aGGACUCGGCGgcgcCCCCGcugccccuGCGgaugCUCGg -3'
miRNA:   3'- -CUUGGGCUGCa---GGGGCu-------UGCaa--GAGC- -5'
9158 3' -54.6 NC_002512.2 + 13467 0.81 0.373449
Target:  5'- cGAGCCUGGCGUCCCCGGACcugCUgCGg -3'
miRNA:   3'- -CUUGGGCUGCAGGGGCUUGcaaGA-GC- -5'
9158 3' -54.6 NC_002512.2 + 13593 0.69 0.92658
Target:  5'- uGACCC-ACGUCCCCGGGaa--CUCGa -3'
miRNA:   3'- cUUGGGcUGCAGGGGCUUgcaaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 15672 0.68 0.945415
Target:  5'- -cGCCUGACGUCCCgGGgcaGCGggCgcagCGg -3'
miRNA:   3'- cuUGGGCUGCAGGGgCU---UGCaaGa---GC- -5'
9158 3' -54.6 NC_002512.2 + 19835 0.67 0.964074
Target:  5'- aGGGCCagguCGACGUCCCCgGAGCGgaaggCGc -3'
miRNA:   3'- -CUUGG----GCUGCAGGGG-CUUGCaaga-GC- -5'
9158 3' -54.6 NC_002512.2 + 29794 0.67 0.975371
Target:  5'- --cCCCGGCGaCCCCGcGACGggCgCGg -3'
miRNA:   3'- cuuGGGCUGCaGGGGC-UUGCaaGaGC- -5'
9158 3' -54.6 NC_002512.2 + 33392 0.67 0.977735
Target:  5'- cGAACCCGGCGUCCgCCagccaGGCGUa---- -3'
miRNA:   3'- -CUUGGGCUGCAGG-GGc----UUGCAagagc -5'
9158 3' -54.6 NC_002512.2 + 33702 0.68 0.957242
Target:  5'- gGGACCCGGcCGUCgCCCccuCGggCUCGc -3'
miRNA:   3'- -CUUGGGCU-GCAG-GGGcuuGCaaGAGC- -5'
9158 3' -54.6 NC_002512.2 + 34460 0.66 0.986968
Target:  5'- cGAcCCCGAaccagucgcugcaCGUCCCCGAgaagACGagCUCc -3'
miRNA:   3'- -CUuGGGCU-------------GCAGGGGCU----UGCaaGAGc -5'
9158 3' -54.6 NC_002512.2 + 39566 0.69 0.92658
Target:  5'- cGAACCCGuCGUCCCCcagcagGAucACGggaaaCUCGg -3'
miRNA:   3'- -CUUGGGCuGCAGGGG------CU--UGCaa---GAGC- -5'
9158 3' -54.6 NC_002512.2 + 39689 0.67 0.972829
Target:  5'- aGGACCCGACcgcgcuagaaCCCgGGACGUUCg-- -3'
miRNA:   3'- -CUUGGGCUGca--------GGGgCUUGCAAGagc -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.