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 + 2955 0.66 0.78549
Target:  5'- cGGCCaUCGCCAcGCC-GAUCGcguAGGCc -3'
miRNA:   3'- cUUGG-AGUGGU-CGGaCUAGCu--UCCGc -5'
23866 3' -54.7 NC_005262.1 + 3817 0.67 0.713133
Target:  5'- aGGAUCgggugCAUgCGcGCCUGAUCGAgcGGGCGa -3'
miRNA:   3'- -CUUGGa----GUG-GU-CGGACUAGCU--UCCGC- -5'
23866 3' -54.7 NC_005262.1 + 4892 0.72 0.436734
Target:  5'- cGGGCC--GCCGGCCUGAUCGcgcAGcGCGg -3'
miRNA:   3'- -CUUGGagUGGUCGGACUAGCu--UC-CGC- -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 + 6309 0.67 0.734376
Target:  5'- -uGCgCUCGCCGGCCgccucUCGucGGCGc -3'
miRNA:   3'- cuUG-GAGUGGUCGGacu--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 + 20231 0.67 0.731214
Target:  5'- cGACCUC-CCAcGUCUGcgCGAggaauccggacggcAGGCGg -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 + 24446 0.66 0.74485
Target:  5'- uGAGCCgUCAC--GCCcGAUCGAuGGCGc -3'
miRNA:   3'- -CUUGG-AGUGguCGGaCUAGCUuCCGC- -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 + 25062 0.68 0.658827
Target:  5'- gGAACCagUCGCCAGCgCUGAgCGucGGGUa -3'
miRNA:   3'- -CUUGG--AGUGGUCG-GACUaGCu-UCCGc -5'
23866 3' -54.7 NC_005262.1 + 26853 0.66 0.789426
Target:  5'- cGAGCUUCuGCUGGCCUcucccgcacggucacGAUCGAguGGGCc -3'
miRNA:   3'- -CUUGGAG-UGGUCGGA---------------CUAGCU--UCCGc -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 + 30228 0.67 0.7238
Target:  5'- uGAUCUCGCCGGCCUcGAgcUCGucGaGCa -3'
miRNA:   3'- cUUGGAGUGGUCGGA-CU--AGCuuC-CGc -5'
23866 3' -54.7 NC_005262.1 + 33497 0.66 0.749008
Target:  5'- cGGGCCUgACgcucgaggacuggaaCGGCCUGGaCGAcgAGGCGa -3'
miRNA:   3'- -CUUGGAgUG---------------GUCGGACUaGCU--UCCGC- -5'
23866 3' -54.7 NC_005262.1 + 38054 0.66 0.775541
Target:  5'- uGAGCggCUUGCCGGCCUGcgCGAucGCc -3'
miRNA:   3'- -CUUG--GAGUGGUCGGACuaGCUucCGc -5'
23866 3' -54.7 NC_005262.1 + 40322 0.69 0.571142
Target:  5'- cGAACCUCGcCCAGCCau-UCGuccAGGCc -3'
miRNA:   3'- -CUUGGAGU-GGUCGGacuAGCu--UCCGc -5'
23866 3' -54.7 NC_005262.1 + 40450 0.68 0.636856
Target:  5'- -cGCUUCacGCCGGCCgUGGUCGAGcGCGu -3'
miRNA:   3'- cuUGGAG--UGGUCGG-ACUAGCUUcCGC- -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 + 43867 0.67 0.709917
Target:  5'- aGGACCUCGgCgcgaucgcgcgcauGGCCgacaUGAagUCGAAGGCGu -3'
miRNA:   3'- -CUUGGAGUgG--------------UCGG----ACU--AGCUUCCGC- -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.