miRNA display CGI


Results 1 - 20 of 30 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
24173 3' -53.2 NC_005263.2 + 22364 1.1 0.001362
Target:  5'- gCGGCAAGAAAGCGUGUCGAUCGGCGGc -3'
miRNA:   3'- -GCCGUUCUUUCGCACAGCUAGCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 20671 0.74 0.365125
Target:  5'- gCGGCcgucGAAAGCGUGU---UCGGCGGc -3'
miRNA:   3'- -GCCGuu--CUUUCGCACAgcuAGCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 29106 0.73 0.433533
Target:  5'- aCGGCGGGAaaGgcagaaugagcgaauAGCGUGUCG-UCGGCa- -3'
miRNA:   3'- -GCCGUUCU--U---------------UCGCACAGCuAGCCGcc -5'
24173 3' -53.2 NC_005263.2 + 32888 0.71 0.521568
Target:  5'- gCGGCGAGuuucguGGCGUcggCG-UCGGCGGc -3'
miRNA:   3'- -GCCGUUCuu----UCGCAca-GCuAGCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 33323 0.7 0.561577
Target:  5'- aCGGCAAGAgguAGGCGUgcgcGUCGGgcagcuuugcgacuUCGGCa- -3'
miRNA:   3'- -GCCGUUCU---UUCGCA----CAGCU--------------AGCCGcc -5'
24173 3' -53.2 NC_005263.2 + 38837 0.7 0.563766
Target:  5'- aCGGCAAGAugaucgcggacucGAGCGgcgucaCGGUCGGCa- -3'
miRNA:   3'- -GCCGUUCU-------------UUCGCaca---GCUAGCCGcc -5'
24173 3' -53.2 NC_005263.2 + 32887 0.69 0.616817
Target:  5'- gCGGCGAaauuucguugacccGGAAGCGcuugccgacGUCGcgCGGCGGc -3'
miRNA:   3'- -GCCGUU--------------CUUUCGCa--------CAGCuaGCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 32211 0.69 0.631282
Target:  5'- gCGGCGAGAucAGCGUGUaaaGcugCaGCGGg -3'
miRNA:   3'- -GCCGUUCUu-UCGCACAg--Cua-GcCGCC- -5'
24173 3' -53.2 NC_005263.2 + 43077 0.69 0.642411
Target:  5'- uCGGCcgccGGGccGGC-UGUCGAgcgCGGCGGa -3'
miRNA:   3'- -GCCG----UUCuuUCGcACAGCUa--GCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 16527 0.69 0.653531
Target:  5'- cCGGCAAauGucGGCGuUGUCGAgcaCGGCGc -3'
miRNA:   3'- -GCCGUU--CuuUCGC-ACAGCUa--GCCGCc -5'
24173 3' -53.2 NC_005263.2 + 24537 0.69 0.653531
Target:  5'- gGGCAAcGgcGGCGgcgCGggCGGCGGc -3'
miRNA:   3'- gCCGUU-CuuUCGCacaGCuaGCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 47432 0.69 0.664631
Target:  5'- uCGGCAAGGcgcgcuacgaugAGGCGU-UCGAUCuGGcCGGc -3'
miRNA:   3'- -GCCGUUCU------------UUCGCAcAGCUAG-CC-GCC- -5'
24173 3' -53.2 NC_005263.2 + 1386 0.68 0.680115
Target:  5'- uGGUggAAGAGAGCGgguucgauuauugcuUGUCG-UCGGCGc -3'
miRNA:   3'- gCCG--UUCUUUCGC---------------ACAGCuAGCCGCc -5'
24173 3' -53.2 NC_005263.2 + 34300 0.68 0.685625
Target:  5'- gCGGaCGAGugcauucgcaccuGGGGCGaagCGAUCGGCGGc -3'
miRNA:   3'- -GCC-GUUC-------------UUUCGCacaGCUAGCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 30016 0.68 0.729109
Target:  5'- uCGGCuuGAGcuuguugaucuggGGCGUGaCGAUCGaGUGGu -3'
miRNA:   3'- -GCCGuuCUU-------------UCGCACaGCUAGC-CGCC- -5'
24173 3' -53.2 NC_005263.2 + 2675 0.67 0.751352
Target:  5'- cCGGCAGccu-GCaGUGUCGcgcCGGCGGc -3'
miRNA:   3'- -GCCGUUcuuuCG-CACAGCua-GCCGCC- -5'
24173 3' -53.2 NC_005263.2 + 46882 0.67 0.760723
Target:  5'- aGGCAAGAgcgacaaGAGcCG-GUCGAgaacauUCGGaCGGa -3'
miRNA:   3'- gCCGUUCU-------UUC-GCaCAGCU------AGCC-GCC- -5'
24173 3' -53.2 NC_005263.2 + 10591 0.67 0.760723
Target:  5'- gGGCAAacccucGAAcgacuucAGCGUGUCGGggugcccgaguUCGGuCGGa -3'
miRNA:   3'- gCCGUU------CUU-------UCGCACAGCU-----------AGCC-GCC- -5'
24173 3' -53.2 NC_005263.2 + 7022 0.67 0.761758
Target:  5'- gCGGCGcGAAA-CGUGUCGAcgaUCGuGCGc -3'
miRNA:   3'- -GCCGUuCUUUcGCACAGCU---AGC-CGCc -5'
24173 3' -53.2 NC_005263.2 + 30337 0.67 0.761758
Target:  5'- -uGCGAGAAGcGCGUGcCGAgcgCGGCc- -3'
miRNA:   3'- gcCGUUCUUU-CGCACaGCUa--GCCGcc -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.