miRNA display CGI


Results 1 - 12 of 12 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
17017 3' -53.7 NC_004333.2 + 25939 0.66 0.805396
Target:  5'- gCGcgCGGCGCGAUGccgGCGGccAGUaCGc -3'
miRNA:   3'- -GCaaGCCGCGCUACcuaCGCU--UCA-GC- -5'
17017 3' -53.7 NC_004333.2 + 33650 0.66 0.795683
Target:  5'- aGUUCGuGCGCGugaucaugucGUGcGAUGCGAcGUUc -3'
miRNA:   3'- gCAAGC-CGCGC----------UAC-CUACGCUuCAGc -5'
17017 3' -53.7 NC_004333.2 + 19127 0.66 0.775745
Target:  5'- --cUCGGCGCGAUcgugGGcgGCGcGGUg- -3'
miRNA:   3'- gcaAGCCGCGCUA----CCuaCGCuUCAgc -5'
17017 3' -53.7 NC_004333.2 + 25745 0.67 0.734146
Target:  5'- cCGgUCGGCGUGAaGGucgguUGCGGgacguuGGUCGu -3'
miRNA:   3'- -GCaAGCCGCGCUaCCu----ACGCU------UCAGC- -5'
17017 3' -53.7 NC_004333.2 + 37801 0.67 0.723456
Target:  5'- gCGaagCGGCGCGAUGcGAaGCGc-GUCGc -3'
miRNA:   3'- -GCaa-GCCGCGCUAC-CUaCGCuuCAGC- -5'
17017 3' -53.7 NC_004333.2 + 38031 0.67 0.722381
Target:  5'- cCGUUCgauaccuGGCGCcccGAccUGGAUGCGAAG-Ca -3'
miRNA:   3'- -GCAAG-------CCGCG---CU--ACCUACGCUUCaGc -5'
17017 3' -53.7 NC_004333.2 + 45076 0.69 0.624458
Target:  5'- gGUUCGGCGCGcUGucgaacGAgGCGAAGaUCGc -3'
miRNA:   3'- gCAAGCCGCGCuAC------CUaCGCUUC-AGC- -5'
17017 3' -53.7 NC_004333.2 + 41585 0.69 0.602262
Target:  5'- uGggCGGCGCGccGUGGcgGCGAug-CGg -3'
miRNA:   3'- gCaaGCCGCGC--UACCuaCGCUucaGC- -5'
17017 3' -53.7 NC_004333.2 + 20974 0.7 0.52585
Target:  5'- gCGcgCGGCGCGGgcgagUGGGUGCGuu-UCGa -3'
miRNA:   3'- -GCaaGCCGCGCU-----ACCUACGCuucAGC- -5'
17017 3' -53.7 NC_004333.2 + 19835 0.71 0.515203
Target:  5'- --aUCGGCGCGAUGGuacgAUGCGcauGuUCGg -3'
miRNA:   3'- gcaAGCCGCGCUACC----UACGCuu-C-AGC- -5'
17017 3' -53.7 NC_004333.2 + 32278 0.72 0.433672
Target:  5'- cCGgaUGGCGCGGgucGGcgGCGAuGUCGa -3'
miRNA:   3'- -GCaaGCCGCGCUa--CCuaCGCUuCAGC- -5'
17017 3' -53.7 NC_004333.2 + 38953 1.1 0.001161
Target:  5'- cCGUUCGGCGCGAUGGAUGCGAAGUCGg -3'
miRNA:   3'- -GCAAGCCGCGCUACCUACGCUUCAGC- -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.