miRNA display CGI


Results 1 - 19 of 19 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
24010 3' -56.9 NC_005262.1 + 23907 0.66 0.699159
Target:  5'- uCAGGAuCGACGcCGAGGcGUUCG-GCa -3'
miRNA:   3'- -GUCCU-GCUGCuGCUUCcCGAGCaCGa -5'
24010 3' -56.9 NC_005262.1 + 40999 0.66 0.685392
Target:  5'- -uGGAUGACGGCGAGGGcguaGUacgguggucgguucUCGUGUg -3'
miRNA:   3'- guCCUGCUGCUGCUUCC----CG--------------AGCACGa -5'
24010 3' -56.9 NC_005262.1 + 5074 0.66 0.667269
Target:  5'- gCGGcGGCGGCGcguGCGAccGGCUCG-GCg -3'
miRNA:   3'- -GUC-CUGCUGC---UGCUucCCGAGCaCGa -5'
24010 3' -56.9 NC_005262.1 + 27867 0.66 0.656563
Target:  5'- aAGGACGGCGGCaAGGcGGC-CGaGCg -3'
miRNA:   3'- gUCCUGCUGCUGcUUC-CCGaGCaCGa -5'
24010 3' -56.9 NC_005262.1 + 29960 0.66 0.645835
Target:  5'- -cGGGCGGCGGCGAAGGuGCcaaaucugGCa -3'
miRNA:   3'- guCCUGCUGCUGCUUCC-CGagca----CGa -5'
24010 3' -56.9 NC_005262.1 + 56611 0.67 0.624353
Target:  5'- --cGugGGCGACGAAGGGCa---GCUa -3'
miRNA:   3'- gucCugCUGCUGCUUCCCGagcaCGA- -5'
24010 3' -56.9 NC_005262.1 + 60490 0.67 0.602897
Target:  5'- uCAGGGCGA-GACGccGGGC-CGcGCg -3'
miRNA:   3'- -GUCCUGCUgCUGCuuCCCGaGCaCGa -5'
24010 3' -56.9 NC_005262.1 + 54359 0.67 0.592201
Target:  5'- gAGGACc-CGGCGAAGGGCUg--GCa -3'
miRNA:   3'- gUCCUGcuGCUGCUUCCCGAgcaCGa -5'
24010 3' -56.9 NC_005262.1 + 60723 0.68 0.581536
Target:  5'- -uGGACGACGACaAGGaccgcuGGCUCG-GCg -3'
miRNA:   3'- guCCUGCUGCUGcUUC------CCGAGCaCGa -5'
24010 3' -56.9 NC_005262.1 + 14309 0.68 0.566675
Target:  5'- aCGGGAgGGCGGCGGAaccgccgagcuGGGCggcgaaguugcgaCGUGCUu -3'
miRNA:   3'- -GUCCUgCUGCUGCUU-----------CCCGa------------GCACGA- -5'
24010 3' -56.9 NC_005262.1 + 23961 0.68 0.55928
Target:  5'- gCAGGugGACGaacgaccggacggGCGGcaccggcaAGGGCggCGUGCc -3'
miRNA:   3'- -GUCCugCUGC-------------UGCU--------UCCCGa-GCACGa -5'
24010 3' -56.9 NC_005262.1 + 62805 0.68 0.549813
Target:  5'- -cGGAaauccCGACGAAGGGCgaCGUGCc -3'
miRNA:   3'- guCCUgcu--GCUGCUUCCCGa-GCACGa -5'
24010 3' -56.9 NC_005262.1 + 53469 0.68 0.539353
Target:  5'- gAGGACaACGGCguGAAGuGGCUCG-GCa -3'
miRNA:   3'- gUCCUGcUGCUG--CUUC-CCGAGCaCGa -5'
24010 3' -56.9 NC_005262.1 + 49089 0.68 0.539353
Target:  5'- gCAGGccguuACGAUGGCGccGGGCaUgGUGCUc -3'
miRNA:   3'- -GUCC-----UGCUGCUGCuuCCCG-AgCACGA- -5'
24010 3' -56.9 NC_005262.1 + 4392 0.69 0.508409
Target:  5'- gUAGu-CGACGAUGAGGGGCgCGUGa- -3'
miRNA:   3'- -GUCcuGCUGCUGCUUCCCGaGCACga -5'
24010 3' -56.9 NC_005262.1 + 30598 0.69 0.468378
Target:  5'- cCAGGuCGGCGACGAccauCUCGUGCg -3'
miRNA:   3'- -GUCCuGCUGCUGCUucccGAGCACGa -5'
24010 3' -56.9 NC_005262.1 + 34010 0.71 0.376132
Target:  5'- -cGGACGGCguGACGccGGGCcgcaUCGUGCg -3'
miRNA:   3'- guCCUGCUG--CUGCuuCCCG----AGCACGa -5'
24010 3' -56.9 NC_005262.1 + 45778 0.73 0.304254
Target:  5'- -cGGcAUcGCGGCGAAGGGCggcggCGUGCUg -3'
miRNA:   3'- guCC-UGcUGCUGCUUCCCGa----GCACGA- -5'
24010 3' -56.9 NC_005262.1 + 25204 1.08 0.001085
Target:  5'- cCAGGACGACGACGAAGGGCUCGUGCUg -3'
miRNA:   3'- -GUCCUGCUGCUGCUUCCCGAGCACGA- -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.