miRNA display CGI


Results 1 - 20 of 38 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
23866 3' -54.7 NC_005262.1 + 24446 0.66 0.74485
Target:  5'- uGAGCCgUCAC--GCCcGAUCGAuGGCGc -3'
miRNA:   3'- -CUUGG-AGUGguCGGaCUAGCUuCCGC- -5'
23866 3' -54.7 NC_005262.1 + 44507 0.68 0.669781
Target:  5'- -cGCCaUCuggGCCAGCCUGAUCGccGcGCu -3'
miRNA:   3'- cuUGG-AG---UGGUCGGACUAGCuuC-CGc -5'
23866 3' -54.7 NC_005262.1 + 61404 0.68 0.680699
Target:  5'- cGACCUCGCgC-GCgaGG-CGAAGGCGg -3'
miRNA:   3'- cUUGGAGUG-GuCGgaCUaGCUUCCGC- -5'
23866 3' -54.7 NC_005262.1 + 29857 0.67 0.702386
Target:  5'- aGAUUUgGCCGGCCUGAccgaCGAGGaGCGc -3'
miRNA:   3'- cUUGGAgUGGUCGGACUa---GCUUC-CGC- -5'
23866 3' -54.7 NC_005262.1 + 44562 0.67 0.702386
Target:  5'- --uUCUCGCCGGCC-GAUaCGcAGGCa -3'
miRNA:   3'- cuuGGAGUGGUCGGaCUA-GCuUCCGc -5'
23866 3' -54.7 NC_005262.1 + 61611 0.67 0.702386
Target:  5'- cGAGCagaagCGCgCGcGCCUGAaggagcUCGAGGGCGa -3'
miRNA:   3'- -CUUGga---GUG-GU-CGGACU------AGCUUCCGC- -5'
23866 3' -54.7 NC_005262.1 + 43867 0.67 0.709917
Target:  5'- aGGACCUCGgCgcgaucgcgcgcauGGCCgacaUGAagUCGAAGGCGu -3'
miRNA:   3'- -CUUGGAGUgG--------------UCGG----ACU--AGCUUCCGC- -5'
23866 3' -54.7 NC_005262.1 + 6309 0.67 0.734376
Target:  5'- -uGCgCUCGCCGGCCgccucUCGucGGCGc -3'
miRNA:   3'- cuUG-GAGUGGUCGGacu--AGCuuCCGC- -5'
23866 3' -54.7 NC_005262.1 + 42080 0.67 0.738579
Target:  5'- --uCC-CGCCGGCCaGAUCGAGacgaucuaccggaacGGCGa -3'
miRNA:   3'- cuuGGaGUGGUCGGaCUAGCUU---------------CCGC- -5'
23866 3' -54.7 NC_005262.1 + 56908 0.68 0.658827
Target:  5'- -cACgCUCGCCGGCgaGAUC-AAGGCc -3'
miRNA:   3'- cuUG-GAGUGGUCGgaCUAGcUUCCGc -5'
23866 3' -54.7 NC_005262.1 + 52937 0.68 0.636856
Target:  5'- cGGCCUgCGCC-GCCUGGgcuUCGccGGCGg -3'
miRNA:   3'- cUUGGA-GUGGuCGGACU---AGCuuCCGC- -5'
23866 3' -54.7 NC_005262.1 + 8776 0.69 0.603891
Target:  5'- -----aCACCGGCUUGAUCGAucGCGa -3'
miRNA:   3'- cuuggaGUGGUCGGACUAGCUucCGC- -5'
23866 3' -54.7 NC_005262.1 + 24965 0.73 0.372256
Target:  5'- cAGCUUCaggaacagGCCGGCUUGGUCGA-GGCGg -3'
miRNA:   3'- cUUGGAG--------UGGUCGGACUAGCUuCCGC- -5'
23866 3' -54.7 NC_005262.1 + 45705 0.71 0.496802
Target:  5'- aGGGCCggcaGCCGGCCgUGAUCGAGcaguucGGCa -3'
miRNA:   3'- -CUUGGag--UGGUCGG-ACUAGCUU------CCGc -5'
23866 3' -54.7 NC_005262.1 + 56785 0.71 0.496802
Target:  5'- uGAAgCUgGCCGGCCUGAaggccgacgUCGAGcGGCu -3'
miRNA:   3'- -CUUgGAgUGGUCGGACU---------AGCUU-CCGc -5'
23866 3' -54.7 NC_005262.1 + 51276 0.71 0.500942
Target:  5'- uGAACCUCACCGGCCgccggcugcugcgcaUGccgcUCGAccagauGGGCGc -3'
miRNA:   3'- -CUUGGAGUGGUCGG---------------ACu---AGCU------UCCGC- -5'
23866 3' -54.7 NC_005262.1 + 5039 0.7 0.549543
Target:  5'- ---gCUCGCCGgccggcGCCUGAUCGGcGGGCa -3'
miRNA:   3'- cuugGAGUGGU------CGGACUAGCU-UCCGc -5'
23866 3' -54.7 NC_005262.1 + 21560 0.7 0.560314
Target:  5'- aGAugC-CGCC-GCCUGGaaaCGAGGGCGg -3'
miRNA:   3'- -CUugGaGUGGuCGGACUa--GCUUCCGC- -5'
23866 3' -54.7 NC_005262.1 + 62539 0.69 0.575487
Target:  5'- cGGCCUUugggcgguuguggggAUCAcGuCCUGGUCGGAGGCGg -3'
miRNA:   3'- cUUGGAG---------------UGGU-C-GGACUAGCUUCCGC- -5'
23866 3' -54.7 NC_005262.1 + 55928 0.69 0.582019
Target:  5'- cGACCgu-CCGGC--GAUCGAGGGCGg -3'
miRNA:   3'- cUUGGaguGGUCGgaCUAGCUUCCGC- -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.