miRNA display CGI


Results 1 - 20 of 57 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
28057 3' -52.2 NC_005887.1 + 20883 0.66 0.854229
Target:  5'- -gGUCGAgaAACCcgACC-CGcUGACCGUg -3'
miRNA:   3'- gaCAGCU--UUGGa-UGGaGCaGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 10508 0.66 0.854229
Target:  5'- -cGUCGAAGCCguaUUCGgaacggggCGGCgGCa -3'
miRNA:   3'- gaCAGCUUUGGaugGAGCa-------GCUGgCG- -5'
28057 3' -52.2 NC_005887.1 + 41457 0.66 0.853366
Target:  5'- --aUCGAAGCCgagGCCgccugacUCGUCcGGCgGCg -3'
miRNA:   3'- gacAGCUUUGGa--UGG-------AGCAG-CUGgCG- -5'
28057 3' -52.2 NC_005887.1 + 24348 0.66 0.851633
Target:  5'- gUGUCuuGACCgu-CUCGUCGgcgacgaaccacgaGCCGCg -3'
miRNA:   3'- gACAGcuUUGGaugGAGCAGC--------------UGGCG- -5'
28057 3' -52.2 NC_005887.1 + 30782 0.66 0.845494
Target:  5'- -gGUUGAAGCCcgAUUcCG-CGACCGCc -3'
miRNA:   3'- gaCAGCUUUGGa-UGGaGCaGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 14198 0.66 0.836523
Target:  5'- gCUGUCGGGcGCg-GCCUCGgacagggCGgcGCCGCg -3'
miRNA:   3'- -GACAGCUU-UGgaUGGAGCa------GC--UGGCG- -5'
28057 3' -52.2 NC_005887.1 + 1807 0.66 0.836523
Target:  5'- gUGcgCGAGcGCCagACCgUCGUCGcuGCCGCg -3'
miRNA:   3'- gACa-GCUU-UGGa-UGG-AGCAGC--UGGCG- -5'
28057 3' -52.2 NC_005887.1 + 26453 0.66 0.836523
Target:  5'- -gGUCG--GCCaGCUgcgCGUCGAgCGCa -3'
miRNA:   3'- gaCAGCuuUGGaUGGa--GCAGCUgGCG- -5'
28057 3' -52.2 NC_005887.1 + 39993 0.66 0.827326
Target:  5'- -cGUCGucGGCCUGCgagcgCUgGUCGcCCGCc -3'
miRNA:   3'- gaCAGCu-UUGGAUG-----GAgCAGCuGGCG- -5'
28057 3' -52.2 NC_005887.1 + 36502 0.66 0.817914
Target:  5'- ---cCGGAACCgUGCg--GUCGACCGCa -3'
miRNA:   3'- gacaGCUUUGG-AUGgagCAGCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 26694 0.66 0.817914
Target:  5'- aUGUCGcGAUacaGCCgUCGcgCGGCCGCg -3'
miRNA:   3'- gACAGCuUUGga-UGG-AGCa-GCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 3689 0.66 0.817914
Target:  5'- -aGUCGGcgaucuUCUACCacgcCGUCGAgCCGCg -3'
miRNA:   3'- gaCAGCUuu----GGAUGGa---GCAGCU-GGCG- -5'
28057 3' -52.2 NC_005887.1 + 40357 0.66 0.817914
Target:  5'- -cGUCGAGcgcgGCCgUGCCgcUCGUCG-CgCGCg -3'
miRNA:   3'- gaCAGCUU----UGG-AUGG--AGCAGCuG-GCG- -5'
28057 3' -52.2 NC_005887.1 + 15412 0.67 0.808296
Target:  5'- uCUGU-GggGCCaGCagugguUCGUCGACgGCg -3'
miRNA:   3'- -GACAgCuuUGGaUGg-----AGCAGCUGgCG- -5'
28057 3' -52.2 NC_005887.1 + 27105 0.67 0.808296
Target:  5'- aCUG-CGGcuGCCUGCUUCG--GGCCGCc -3'
miRNA:   3'- -GACaGCUu-UGGAUGGAGCagCUGGCG- -5'
28057 3' -52.2 NC_005887.1 + 33048 0.67 0.802431
Target:  5'- -cGUCGGcguuucggugcccguAACCUGCggCGUCG-CCGUg -3'
miRNA:   3'- gaCAGCU---------------UUGGAUGgaGCAGCuGGCG- -5'
28057 3' -52.2 NC_005887.1 + 13237 0.67 0.798484
Target:  5'- -cGUaCGAAACCcGgCUCGUCgcGACCGa -3'
miRNA:   3'- gaCA-GCUUUGGaUgGAGCAG--CUGGCg -5'
28057 3' -52.2 NC_005887.1 + 25879 0.67 0.798484
Target:  5'- -cGcCGGAuCCUGCCgcgCgGUCGAgCGCa -3'
miRNA:   3'- gaCaGCUUuGGAUGGa--G-CAGCUgGCG- -5'
28057 3' -52.2 NC_005887.1 + 21315 0.67 0.798484
Target:  5'- cCUGUCGAGacgaucGCCUgACCggaCGUUGAgCCGg -3'
miRNA:   3'- -GACAGCUU------UGGA-UGGa--GCAGCU-GGCg -5'
28057 3' -52.2 NC_005887.1 + 40526 0.67 0.788488
Target:  5'- gUGUCGccgaagauGCCgUACCagGUCGGCgGCa -3'
miRNA:   3'- gACAGCuu------UGG-AUGGagCAGCUGgCG- -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.