miRNA display CGI


Results 1 - 20 of 53 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
21222 3' -54.9 NC_004778.3 + 107894 0.66 0.912828
Target:  5'- -aCGUGGGCUgcgccguuGCGGAAAcgguGCUgGACUGCg -3'
miRNA:   3'- gcGCACCCGG--------CGCUUUU----CGA-UUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 17335 0.67 0.87255
Target:  5'- -aCGUGGGUguggugCGCGggGcGCUAGCUGa -3'
miRNA:   3'- gcGCACCCG------GCGCuuUuCGAUUGGCg -5'
21222 3' -54.9 NC_004778.3 + 50783 0.67 0.87255
Target:  5'- uGCcgauGGCCGCGGuuAGCUuuUCGCg -3'
miRNA:   3'- gCGcac-CCGGCGCUuuUCGAuuGGCG- -5'
21222 3' -54.9 NC_004778.3 + 110878 0.67 0.879843
Target:  5'- gCGCGUGuaCaGCGAAcuGCUGGCCaGCg -3'
miRNA:   3'- -GCGCACccGgCGCUUuuCGAUUGG-CG- -5'
21222 3' -54.9 NC_004778.3 + 102190 0.67 0.88691
Target:  5'- uGUGgacgcGGGCUGUGAcgGAGGCcuGCUGCa -3'
miRNA:   3'- gCGCa----CCCGGCGCU--UUUCGauUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 75143 0.67 0.893746
Target:  5'- -aCGUuGGCCGcCGggGcgGGCUcacuGGCCGCa -3'
miRNA:   3'- gcGCAcCCGGC-GCuuU--UCGA----UUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 121428 0.67 0.897734
Target:  5'- aCGCGUcGGCCGUGucgccgccgucGGC--GCCGCg -3'
miRNA:   3'- -GCGCAcCCGGCGCuuu--------UCGauUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 33006 0.67 0.900346
Target:  5'- cCGCGUGcgcaucGCCGCGuuccAGCacccuuGCCGCg -3'
miRNA:   3'- -GCGCACc-----CGGCGCuuu-UCGau----UGGCG- -5'
21222 3' -54.9 NC_004778.3 + 25657 0.66 0.912828
Target:  5'- gCGCGgGGGCCGgCGGcguguGGGUcAACgGCa -3'
miRNA:   3'- -GCGCaCCCGGC-GCUu----UUCGaUUGgCG- -5'
21222 3' -54.9 NC_004778.3 + 33442 0.67 0.865036
Target:  5'- uGCG-GcGG-CGCGAAAAGCgcgGCCGUc -3'
miRNA:   3'- gCGCaC-CCgGCGCUUUUCGau-UGGCG- -5'
21222 3' -54.9 NC_004778.3 + 97396 0.68 0.849366
Target:  5'- uCGUGUGGcGgCGCGc-AAGgaAGCCGCc -3'
miRNA:   3'- -GCGCACC-CgGCGCuuUUCgaUUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 45121 0.68 0.832887
Target:  5'- aGCGcccGCUGUGGAGAGCgacccGGCCGCg -3'
miRNA:   3'- gCGCaccCGGCGCUUUUCGa----UUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 97360 0.74 0.515945
Target:  5'- uCGCGUuguuGGGCauCGCGuauuuGCUGACCGCc -3'
miRNA:   3'- -GCGCA----CCCG--GCGCuuuu-CGAUUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 124316 0.73 0.542952
Target:  5'- gGCGUGGGCacggcgucuuccggCGaguaaGAAAGGCggcGACCGCg -3'
miRNA:   3'- gCGCACCCG--------------GCg----CUUUUCGa--UUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 120967 0.73 0.565295
Target:  5'- gGCGcGGGCCGCGccc-GCUGccccggcGCCGCc -3'
miRNA:   3'- gCGCaCCCGGCGCuuuuCGAU-------UGGCG- -5'
21222 3' -54.9 NC_004778.3 + 108063 0.72 0.638606
Target:  5'- gCGCuUGGaGCUGgGcAAAGCUAAUCGCa -3'
miRNA:   3'- -GCGcACC-CGGCgCuUUUCGAUUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 94577 0.72 0.648976
Target:  5'- aCGCGU--GUCGCGAAGGGUUAGCCa- -3'
miRNA:   3'- -GCGCAccCGGCGCUUUUCGAUUGGcg -5'
21222 3' -54.9 NC_004778.3 + 111791 0.69 0.784833
Target:  5'- cCGCGUuggaaucugccacGGGCCGCGccgguaacaagggcGAGGGC--GCCGUa -3'
miRNA:   3'- -GCGCA-------------CCCGGCGC--------------UUUUCGauUGGCG- -5'
21222 3' -54.9 NC_004778.3 + 14272 0.69 0.787624
Target:  5'- cCGCcuuuUGGGCCGCGAAGucaacguGGCcAccaacacguuucGCCGCa -3'
miRNA:   3'- -GCGc---ACCCGGCGCUUU-------UCGaU------------UGGCG- -5'
21222 3' -54.9 NC_004778.3 + 62814 0.69 0.788551
Target:  5'- uGgGUGGGCCgauuGCGAGGAGgUuaaaugaaAGCCGUc -3'
miRNA:   3'- gCgCACCCGG----CGCUUUUCgA--------UUGGCG- -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.