miRNA display CGI


Results 1 - 20 of 34 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
30512 3' -62 NC_006548.1 + 33447 0.66 0.300602
Target:  5'- uGGGCUggcgcgguucuucaGGGCUGAugcucccGGCCGGCgcgauauccgcauuGAGCUGu -3'
miRNA:   3'- gCUCGG--------------UCCGGCU-------UCGGCCG--------------CUCGAC- -5'
30512 3' -62 NC_006548.1 + 36807 0.66 0.298393
Target:  5'- aGcGCCAGGCgCGGccuuaugcgccuGGCCGG-GuGCUGg -3'
miRNA:   3'- gCuCGGUCCG-GCU------------UCGGCCgCuCGAC- -5'
30512 3' -62 NC_006548.1 + 12339 0.66 0.291121
Target:  5'- --cGCCAGGCCcugugcGCCgacgGGCGAGCg- -3'
miRNA:   3'- gcuCGGUCCGGcuu---CGG----CCGCUCGac -5'
30512 3' -62 NC_006548.1 + 15150 0.66 0.291121
Target:  5'- gGAcGCgCAGGCCGGcaAGCgCGGCGGacGCa- -3'
miRNA:   3'- gCU-CG-GUCCGGCU--UCG-GCCGCU--CGac -5'
30512 3' -62 NC_006548.1 + 820 0.66 0.283282
Target:  5'- gCGGGCaacuGGCUGAAguuaugcggcuuGCCGGCGGcucgcuuGCUGg -3'
miRNA:   3'- -GCUCGgu--CCGGCUU------------CGGCCGCU-------CGAC- -5'
30512 3' -62 NC_006548.1 + 1672 0.66 0.276302
Target:  5'- uGGGCCGGGgCGGAGagaguuaUCGGCuGGGCa- -3'
miRNA:   3'- gCUCGGUCCgGCUUC-------GGCCG-CUCGac -5'
30512 3' -62 NC_006548.1 + 32746 0.66 0.270138
Target:  5'- -cAGCCuugcAGGCUGggGCgGGCGGaucugggcGCUGc -3'
miRNA:   3'- gcUCGG----UCCGGCuuCGgCCGCU--------CGAC- -5'
30512 3' -62 NC_006548.1 + 17376 0.66 0.270138
Target:  5'- uGAGuccacCCAGGCCGAGGCCacGGCGccgacGCc- -3'
miRNA:   3'- gCUC-----GGUCCGGCUUCGG--CCGCu----CGac -5'
30512 3' -62 NC_006548.1 + 8208 0.66 0.26342
Target:  5'- gGAGCaCAGuGCCGAGGUCauGGCGcAGUUc -3'
miRNA:   3'- gCUCG-GUC-CGGCUUCGG--CCGC-UCGAc -5'
30512 3' -62 NC_006548.1 + 22317 0.66 0.26342
Target:  5'- -cGGUCAGGCCGAAGgUGGUGccGUUGc -3'
miRNA:   3'- gcUCGGUCCGGCUUCgGCCGCu-CGAC- -5'
30512 3' -62 NC_006548.1 + 5493 0.67 0.256838
Target:  5'- uCGAGCCAGGUCGGccuGGgucuugcugaccCCGGCaAGCa- -3'
miRNA:   3'- -GCUCGGUCCGGCU---UC------------GGCCGcUCGac -5'
30512 3' -62 NC_006548.1 + 2369 0.67 0.24221
Target:  5'- --cGCCAGGCCGGcgguuuuccauccgAGCCGGCuGGaaccCUGg -3'
miRNA:   3'- gcuCGGUCCGGCU--------------UCGGCCGcUC----GAC- -5'
30512 3' -62 NC_006548.1 + 19603 0.67 0.237898
Target:  5'- -aAGCCAuGGCCG-AGCCGGCau-CUGg -3'
miRNA:   3'- gcUCGGU-CCGGCuUCGGCCGcucGAC- -5'
30512 3' -62 NC_006548.1 + 14375 0.67 0.237898
Target:  5'- -cGGCCAGaaGCUGGAG-CGGCG-GCUGg -3'
miRNA:   3'- gcUCGGUC--CGGCUUCgGCCGCuCGAC- -5'
30512 3' -62 NC_006548.1 + 9735 0.68 0.220142
Target:  5'- uGGGCUuGGCCGuAGuuGGCuuuGAGUUGg -3'
miRNA:   3'- gCUCGGuCCGGCuUCggCCG---CUCGAC- -5'
30512 3' -62 NC_006548.1 + 12126 0.68 0.220142
Target:  5'- -cGGCCaAGGCCGAugagaucccgcgGGCCGcCGAGCa- -3'
miRNA:   3'- gcUCGG-UCCGGCU------------UCGGCcGCUCGac -5'
30512 3' -62 NC_006548.1 + 21242 0.68 0.212804
Target:  5'- -cGGCCAGGCCGuccgagcuGCCauggaucacgauacGGCGGGCg- -3'
miRNA:   3'- gcUCGGUCCGGCuu------CGG--------------CCGCUCGac -5'
30512 3' -62 NC_006548.1 + 29355 0.68 0.208395
Target:  5'- aGAGCCAaagugagcuGGUCGGcggccAGCCGGguauuguCGAGCUGc -3'
miRNA:   3'- gCUCGGU---------CCGGCU-----UCGGCC-------GCUCGAC- -5'
30512 3' -62 NC_006548.1 + 35927 0.68 0.203528
Target:  5'- uCGGGCCua-CCGA--CCGGCGAGUUGg -3'
miRNA:   3'- -GCUCGGuccGGCUucGGCCGCUCGAC- -5'
30512 3' -62 NC_006548.1 + 17948 0.68 0.203528
Target:  5'- gGAGCCGgaggguGGCC--AGCCuGGCGGGCg- -3'
miRNA:   3'- gCUCGGU------CCGGcuUCGG-CCGCUCGac -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.