miRNA display CGI


Results 1 - 20 of 81 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
11539 5' -63 NC_003085.1 + 557 0.68 0.230805
Target:  5'- gCGgGGUGGccgucgaagugcAGGGcgaGCC-CCCGCCGCa -3'
miRNA:   3'- -GCgCCGUC------------UCCCua-CGGuGGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 644 0.7 0.159966
Target:  5'- uGCGGCGGGGGccgcccugcacuucGAcgGCCAcCCCGCCcugGCu -3'
miRNA:   3'- gCGCCGUCUCC--------------CUa-CGGU-GGGCGG---CG- -5'
11539 5' -63 NC_003085.1 + 1269 0.67 0.260585
Target:  5'- uCGCGcacgaccuggaGCAGgaGGGGAUGCCGgaguucuCCCgcgugGCCGCg -3'
miRNA:   3'- -GCGC-----------CGUC--UCCCUACGGU-------GGG-----CGGCG- -5'
11539 5' -63 NC_003085.1 + 1746 0.68 0.242599
Target:  5'- aGUGGUAGAGGGugacGUCGCCgCGuuGg -3'
miRNA:   3'- gCGCCGUCUCCCua--CGGUGG-GCggCg -5'
11539 5' -63 NC_003085.1 + 2035 0.67 0.274277
Target:  5'- aCGCGGCGGAaccugucgguGGcGAaGCCG-CUGCCGUu -3'
miRNA:   3'- -GCGCCGUCU----------CC-CUaCGGUgGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 3107 0.67 0.287848
Target:  5'- gCGCGGCuuGAGGcGAUGCUcgACCUugagaGgCGCg -3'
miRNA:   3'- -GCGCCGu-CUCC-CUACGG--UGGG-----CgGCG- -5'
11539 5' -63 NC_003085.1 + 3957 0.71 0.137643
Target:  5'- uCGCGGCccGGGGAUggaGCCAgaCgGCCGCg -3'
miRNA:   3'- -GCGCCGucUCCCUA---CGGUg-GgCGGCG- -5'
11539 5' -63 NC_003085.1 + 4826 0.69 0.214026
Target:  5'- uGCauGCAGuGGGGUGUCAgUCUGCCGUg -3'
miRNA:   3'- gCGc-CGUCuCCCUACGGU-GGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 6085 0.66 0.331705
Target:  5'- aGCGGCcccAGGGA-GUCcUCCGUCGCc -3'
miRNA:   3'- gCGCCGuc-UCCCUaCGGuGGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 6771 0.75 0.067969
Target:  5'- uGCGGUgcAGGGcgGCCGCaaGCCGCu -3'
miRNA:   3'- gCGCCGucUCCCuaCGGUGggCGGCG- -5'
11539 5' -63 NC_003085.1 + 7046 0.68 0.242599
Target:  5'- aGCGGCcggagccaacggAGAGGGcaucgcUGCCgaagucgaccGCCCaGCCGCc -3'
miRNA:   3'- gCGCCG------------UCUCCCu-----ACGG----------UGGG-CGGCG- -5'
11539 5' -63 NC_003085.1 + 7539 0.69 0.213485
Target:  5'- gCGCgGGCcGAGGGGUGUgAcgucgacCuuGCCGCg -3'
miRNA:   3'- -GCG-CCGuCUCCCUACGgU-------GggCGGCG- -5'
11539 5' -63 NC_003085.1 + 8528 0.67 0.290624
Target:  5'- gCGCaGGCGaAGGcGGUgacGCCAugacuugccccgcucCCCGCCGCa -3'
miRNA:   3'- -GCG-CCGUcUCC-CUA---CGGU---------------GGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 9144 0.66 0.324066
Target:  5'- aGCGGCAccuGGcGGA-GCUcgCCGCCGCg -3'
miRNA:   3'- gCGCCGUc--UC-CCUaCGGugGGCGGCG- -5'
11539 5' -63 NC_003085.1 + 9487 0.72 0.130513
Target:  5'- uCGUGGUAGGGaaaGAUGCuCGCCUuuaGCCGCg -3'
miRNA:   3'- -GCGCCGUCUCc--CUACG-GUGGG---CGGCG- -5'
11539 5' -63 NC_003085.1 + 10154 0.66 0.339476
Target:  5'- aCGcCGGCGGGGGcucAUGCggaagcaACCCaGCCGUg -3'
miRNA:   3'- -GC-GCCGUCUCCc--UACGg------UGGG-CGGCG- -5'
11539 5' -63 NC_003085.1 + 10540 0.67 0.254889
Target:  5'- gGuCGGCcagccGAGGGgcGCCAaagCGCCGCg -3'
miRNA:   3'- gC-GCCGu----CUCCCuaCGGUgg-GCGGCG- -5'
11539 5' -63 NC_003085.1 + 10764 0.67 0.274277
Target:  5'- gGCGccgggaagacGCuGGGGGcAUGCCACCUcuuCCGCg -3'
miRNA:   3'- gCGC----------CGuCUCCC-UACGGUGGGc--GGCG- -5'
11539 5' -63 NC_003085.1 + 11513 0.72 0.120455
Target:  5'- uGCGGguGuGGuGcgGUUACCgGCCGCg -3'
miRNA:   3'- gCGCCguCuCC-CuaCGGUGGgCGGCG- -5'
11539 5' -63 NC_003085.1 + 11608 0.66 0.331705
Target:  5'- gGCGGCGcGaAGGGGcugugcaggggcUGCUACCaGCgCGCg -3'
miRNA:   3'- gCGCCGU-C-UCCCU------------ACGGUGGgCG-GCG- -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.