miRNA display CGI


Results 1 - 20 of 35 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
11612 3' -63.1 NC_003085.1 + 798 0.66 0.337753
Target:  5'- gCCCCagGCCacggUGGACgUCCGCGUGCc- -3'
miRNA:   3'- aGGGG--CGGga--GCCUG-AGGUGCGCGuc -5'
11612 3' -63.1 NC_003085.1 + 4120 0.67 0.286458
Target:  5'- gCgCCGCgCUgGGACUCCA-GCGCc- -3'
miRNA:   3'- aGgGGCGgGAgCCUGAGGUgCGCGuc -5'
11612 3' -63.1 NC_003085.1 + 5810 0.73 0.096825
Target:  5'- aCCCCGCCCccCGGGCUgCugGagGCGGa -3'
miRNA:   3'- aGGGGCGGGa-GCCUGAgGugCg-CGUC- -5'
11612 3' -63.1 NC_003085.1 + 8790 0.68 0.241502
Target:  5'- cCCCUGCgCCggCGG-CUCCGCgagguugcgcgGCGCAGc -3'
miRNA:   3'- aGGGGCG-GGa-GCCuGAGGUG-----------CGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 10124 0.67 0.286458
Target:  5'- -aCCUGCUCgcagCGGACUaCCGCgaacuGCGCGGc -3'
miRNA:   3'- agGGGCGGGa---GCCUGA-GGUG-----CGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 12884 0.7 0.156495
Target:  5'- -gCCCGCCCUCGaagcCUCC-CGUGCAa -3'
miRNA:   3'- agGGGCGGGAGCcu--GAGGuGCGCGUc -5'
11612 3' -63.1 NC_003085.1 + 17243 0.67 0.266427
Target:  5'- gCCCCGUgCUCuGGGCggUguUGCGCAGg -3'
miRNA:   3'- aGGGGCGgGAG-CCUGa-GguGCGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 18712 0.66 0.337753
Target:  5'- gCCCCGCCUgacgagacgGGACgcgCCuuccUGCGCAGc -3'
miRNA:   3'- aGGGGCGGGag-------CCUGa--GGu---GCGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 20053 0.73 0.099214
Target:  5'- gCCCgCGCCCUCcuggagcgGGACauccgcuUCCACGCGCGc -3'
miRNA:   3'- aGGG-GCGGGAG--------CCUG-------AGGUGCGCGUc -5'
11612 3' -63.1 NC_003085.1 + 20276 0.67 0.293393
Target:  5'- cUCCgCGUCCUCGcGGCgcugCCAC-UGCGGg -3'
miRNA:   3'- -AGGgGCGGGAGC-CUGa---GGUGcGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 21504 0.66 0.309841
Target:  5'- cUUCCCGCCCcacaccgCGGACgaguagaugggcaagUCCcgguaccggaaccACGCGCGGc -3'
miRNA:   3'- -AGGGGCGGGa------GCCUG---------------AGG-------------UGCGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 21704 0.67 0.260007
Target:  5'- -gCCCGCuucgCCUCGGACaUCCA-GCGCc- -3'
miRNA:   3'- agGGGCG----GGAGCCUG-AGGUgCGCGuc -5'
11612 3' -63.1 NC_003085.1 + 21830 0.67 0.286458
Target:  5'- gUCCCGCUggCGGcgagccccccagGCUCCAcacacCGCGCAGg -3'
miRNA:   3'- aGGGGCGGgaGCC------------UGAGGU-----GCGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 22056 0.67 0.293393
Target:  5'- aUUgCGCCCgCGGGCagguaCCACGCGCGc -3'
miRNA:   3'- aGGgGCGGGaGCCUGa----GGUGCGCGUc -5'
11612 3' -63.1 NC_003085.1 + 23427 0.66 0.314984
Target:  5'- gCCCUGCuCCUUcaACUgCugGCGCAGc -3'
miRNA:   3'- aGGGGCG-GGAGccUGAgGugCGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 23672 0.67 0.269031
Target:  5'- aCgCCGCCCaggcguccacgcagCGGGC-CCGCGCaGCAGc -3'
miRNA:   3'- aGgGGCGGGa-------------GCCUGaGGUGCG-CGUC- -5'
11612 3' -63.1 NC_003085.1 + 24980 0.69 0.20779
Target:  5'- aUCCUGCCgcagaacauCUCGGACacgUCCGCgGUGCAGa -3'
miRNA:   3'- aGGGGCGG---------GAGCCUG---AGGUG-CGCGUC- -5'
11612 3' -63.1 NC_003085.1 + 25239 0.68 0.235582
Target:  5'- gCgCCGCCCU-GGugcGCUCCGCG-GCGGg -3'
miRNA:   3'- aGgGGCGGGAgCC---UGAGGUGCgCGUC- -5'
11612 3' -63.1 NC_003085.1 + 26624 0.66 0.333105
Target:  5'- cUCCUCGUCUgCGGACUCaaacugagguggcaACGCGCc- -3'
miRNA:   3'- -AGGGGCGGGaGCCUGAGg-------------UGCGCGuc -5'
11612 3' -63.1 NC_003085.1 + 27134 0.67 0.293393
Target:  5'- uUCCUgGCCUgCGGAUUCaugGCGCGGg -3'
miRNA:   3'- -AGGGgCGGGaGCCUGAGgugCGCGUC- -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.