miRNA display CGI


Results 1 - 20 of 36 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
351 3' -48.3 AC_000011.1 + 329 0.68 0.851222
Target:  5'- uCGCGUuuaUGGCAGGGAGGAGuauuuGCCgaGGGCc -3'
miRNA:   3'- -GCGCG---GCUGUUCCUUUUUu----UGG--UCUG- -5'
351 3' -48.3 AC_000011.1 + 3695 0.68 0.877566
Target:  5'- aGCGCCGuGCGcGGAAu--GGCCauGGGCg -3'
miRNA:   3'- gCGCGGC-UGUuCCUUuuuUUGG--UCUG- -5'
351 3' -48.3 AC_000011.1 + 5228 0.67 0.893654
Target:  5'- gCGCGCCGggcugggcgcuuGCGAGGGugcgcuUCAGGCu -3'
miRNA:   3'- -GCGCGGC------------UGUUCCUuuuuuuGGUCUG- -5'
351 3' -48.3 AC_000011.1 + 5339 0.73 0.570994
Target:  5'- gGCGCCGAUcGGGAGcgGuuuucgaccAGCCGGAUg -3'
miRNA:   3'- gCGCGGCUGuUCCUUuuU---------UUGGUCUG- -5'
351 3' -48.3 AC_000011.1 + 5524 0.66 0.928352
Target:  5'- uCGgGCUGGuCGGGGucAAAAACCAGu- -3'
miRNA:   3'- -GCgCGGCU-GUUCCuuUUUUUGGUCug -5'
351 3' -48.3 AC_000011.1 + 6239 1.1 0.002701
Target:  5'- gCGCGCCGACAAGGAAAAAAACCAGACc -3'
miRNA:   3'- -GCGCGGCUGUUCCUUUUUUUGGUCUG- -5'
351 3' -48.3 AC_000011.1 + 6434 0.66 0.928352
Target:  5'- gGgGUCGGCAucgauGGuGAAGAuGCCGGGCa -3'
miRNA:   3'- gCgCGGCUGUu----CC-UUUUUuUGGUCUG- -5'
351 3' -48.3 AC_000011.1 + 7137 0.66 0.939963
Target:  5'- uGCGCCuACAAGGccGucAACCAGu- -3'
miRNA:   3'- gCGCGGcUGUUCCuuUuuUUGGUCug -5'
351 3' -48.3 AC_000011.1 + 7549 0.67 0.893654
Target:  5'- gGgGuuGGCGcggAGGAAGGAAGuCCAGAg -3'
miRNA:   3'- gCgCggCUGU---UCCUUUUUUU-GGUCUg -5'
351 3' -48.3 AC_000011.1 + 7853 0.69 0.791561
Target:  5'- uGCgaGCCGAUggGGAA--GAACUGGAUc -3'
miRNA:   3'- gCG--CGGCUGuuCCUUuuUUUGGUCUG- -5'
351 3' -48.3 AC_000011.1 + 8455 0.77 0.385755
Target:  5'- aGCGgCGGCGAGGAcgcgcGCCGGGCg -3'
miRNA:   3'- gCGCgGCUGUUCCUuuuuuUGGUCUG- -5'
351 3' -48.3 AC_000011.1 + 8836 0.7 0.760026
Target:  5'- gCGCGCCGGCcgcggagaccuucaaGAGGAGGAGaucgagcaguucauGACCgAGAUc -3'
miRNA:   3'- -GCGCGGCUG---------------UUCCUUUUU--------------UUGG-UCUG- -5'
351 3' -48.3 AC_000011.1 + 9281 0.67 0.915439
Target:  5'- aGUGgUGGCGGGGGAGGGGGCCu-GCg -3'
miRNA:   3'- gCGCgGCUGUUCCUUUUUUUGGucUG- -5'
351 3' -48.3 AC_000011.1 + 9879 0.75 0.468409
Target:  5'- cCGCGCgGGCGAGGAGGAGGugCccguGGAg -3'
miRNA:   3'- -GCGCGgCUGUUCCUUUUUUugG----UCUg -5'
351 3' -48.3 AC_000011.1 + 9905 0.74 0.547553
Target:  5'- aCGCGCuCGGCGAGGAuggcuuGCUGGAUc -3'
miRNA:   3'- -GCGCG-GCUGUUCCUuuuuu-UGGUCUG- -5'
351 3' -48.3 AC_000011.1 + 11177 0.66 0.93432
Target:  5'- gGUGCUgaggGACGAGGAuuucGAGgCGGACg -3'
miRNA:   3'- gCGCGG----CUGUUCCUuuu-UUUgGUCUG- -5'
351 3' -48.3 AC_000011.1 + 11335 0.66 0.945284
Target:  5'- uCGCGCgCGAgGAGGugacccuGGGCCuGAUg -3'
miRNA:   3'- -GCGCG-GCUgUUCCuuuu---UUUGGuCUG- -5'
351 3' -48.3 AC_000011.1 + 11653 0.72 0.654301
Target:  5'- aCGUGCCcauaGACAAGGAGguGAAGAUC-GACg -3'
miRNA:   3'- -GCGCGG----CUGUUCCUU--UUUUUGGuCUG- -5'
351 3' -48.3 AC_000011.1 + 11838 0.71 0.713315
Target:  5'- gGgGCCGGgacCGAGGggGAGAGCUAcuuuGACa -3'
miRNA:   3'- gCgCGGCU---GUUCCuuUUUUUGGU----CUG- -5'
351 3' -48.3 AC_000011.1 + 13610 0.68 0.841887
Target:  5'- gGCGUCG-CAGGGGGccacGAGCCGGGg -3'
miRNA:   3'- gCGCGGCuGUUCCUUuu--UUUGGUCUg -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.