miRNA display CGI


Results 1 - 20 of 126 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
6426 3' -57.1 NC_001847.1 + 76142 1.09 0.002049
Target:  5'- aCGCUCUUUCCAAGCUCGCCUCCGCCGu -3'
miRNA:   3'- -GCGAGAAAGGUUCGAGCGGAGGCGGC- -5'
6426 3' -57.1 NC_001847.1 + 31849 0.74 0.406018
Target:  5'- aCGUUCgcgcgcCCGGGCUCGCCggcguugCUGCCGg -3'
miRNA:   3'- -GCGAGaaa---GGUUCGAGCGGa------GGCGGC- -5'
6426 3' -57.1 NC_001847.1 + 110732 0.73 0.441351
Target:  5'- cCGCUCUgUCCAcggcGGC-CGCCacggCCGCCa -3'
miRNA:   3'- -GCGAGAaAGGU----UCGaGCGGa---GGCGGc -5'
6426 3' -57.1 NC_001847.1 + 131852 0.73 0.441351
Target:  5'- gCGCUCg--CCGAGCUgcgCGCCgugCuCGCCGg -3'
miRNA:   3'- -GCGAGaaaGGUUCGA---GCGGa--G-GCGGC- -5'
6426 3' -57.1 NC_001847.1 + 29039 0.73 0.441351
Target:  5'- gCGCUCg--CCGAGCUgcgCGCCgugCuCGCCGg -3'
miRNA:   3'- -GCGAGaaaGGUUCGA---GCGGa--G-GCGGC- -5'
6426 3' -57.1 NC_001847.1 + 102005 0.73 0.450454
Target:  5'- gCGCUCg--CCAcgcggaagcGCUCGCCgCCGCCGc -3'
miRNA:   3'- -GCGAGaaaGGUu--------CGAGCGGaGGCGGC- -5'
6426 3' -57.1 NC_001847.1 + 81540 0.73 0.468964
Target:  5'- cCGUUCggcggCCGAGCUCGCCggccCCGCg- -3'
miRNA:   3'- -GCGAGaaa--GGUUCGAGCGGa---GGCGgc -5'
6426 3' -57.1 NC_001847.1 + 19374 0.72 0.487855
Target:  5'- aCGCUCUggCCGAgccggcuccccGCUCGgCUCCGCgGc -3'
miRNA:   3'- -GCGAGAaaGGUU-----------CGAGCgGAGGCGgC- -5'
6426 3' -57.1 NC_001847.1 + 67060 0.72 0.507097
Target:  5'- cCGCUCgcgCCGcggcGUUCGCC-CCGCCGc -3'
miRNA:   3'- -GCGAGaaaGGUu---CGAGCGGaGGCGGC- -5'
6426 3' -57.1 NC_001847.1 + 4331 0.72 0.507097
Target:  5'- cCGCUUcggCCGcGGC-CGCCUCCGCCc -3'
miRNA:   3'- -GCGAGaaaGGU-UCGaGCGGAGGCGGc -5'
6426 3' -57.1 NC_001847.1 + 107144 0.72 0.507097
Target:  5'- cCGCUUcggCCGcGGC-CGCCUCCGCCc -3'
miRNA:   3'- -GCGAGaaaGGU-UCGaGCGGAGGCGGc -5'
6426 3' -57.1 NC_001847.1 + 33220 0.71 0.533567
Target:  5'- gGCUCggcuuggcgccgcgCCGGGCgccgcggCGCCUCCGCUGc -3'
miRNA:   3'- gCGAGaaa-----------GGUUCGa------GCGGAGGCGGC- -5'
6426 3' -57.1 NC_001847.1 + 18515 0.71 0.536539
Target:  5'- aGCUCUgg-CGAGUUCGUCUCCaggguGCCGg -3'
miRNA:   3'- gCGAGAaagGUUCGAGCGGAGG-----CGGC- -5'
6426 3' -57.1 NC_001847.1 + 2674 0.71 0.546488
Target:  5'- gGCUCgg-CCGgcaucGGCUCGuCCUCCGCg- -3'
miRNA:   3'- gCGAGaaaGGU-----UCGAGC-GGAGGCGgc -5'
6426 3' -57.1 NC_001847.1 + 39719 0.71 0.546488
Target:  5'- gGCUCUgcgcugUCGGGcCUUGgCUCCGCCGa -3'
miRNA:   3'- gCGAGAaa----GGUUC-GAGCgGAGGCGGC- -5'
6426 3' -57.1 NC_001847.1 + 86663 0.71 0.556494
Target:  5'- uGCUCUUcUCgGAGCUCGCCgCgCGCUu -3'
miRNA:   3'- gCGAGAA-AGgUUCGAGCGGaG-GCGGc -5'
6426 3' -57.1 NC_001847.1 + 2403 0.71 0.576658
Target:  5'- gCGCUCgg-CCGuGGCUCGCUgcgCCGCUu -3'
miRNA:   3'- -GCGAGaaaGGU-UCGAGCGGa--GGCGGc -5'
6426 3' -57.1 NC_001847.1 + 87764 0.71 0.576658
Target:  5'- gGCgaucgUCGAGCUCGUCgggCCGCCGg -3'
miRNA:   3'- gCGagaaaGGUUCGAGCGGa--GGCGGC- -5'
6426 3' -57.1 NC_001847.1 + 101766 0.71 0.586803
Target:  5'- aGCUCcUUCUuGGCggcagCGCCuUCCGCCu -3'
miRNA:   3'- gCGAGaAAGGuUCGa----GCGG-AGGCGGc -5'
6426 3' -57.1 NC_001847.1 + 17676 0.7 0.59698
Target:  5'- gGCUCgcgguccgCCGGGCaccacCGUCUCCGCCa -3'
miRNA:   3'- gCGAGaaa-----GGUUCGa----GCGGAGGCGGc -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.