miRNA display CGI


Results 1 - 20 of 305 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
9134 3' -65.1 NC_002512.2 + 289 0.75 0.213387
Target:  5'- cUCUCCgCCCGGGCCCCuucuCGCCCccgUCCCu -3'
miRNA:   3'- -GGAGG-GGGCUUGGGGc---GCGGG---AGGGu -5'
9134 3' -65.1 NC_002512.2 + 335 0.71 0.341807
Target:  5'- uCCUCCgCCGGcGCCCCGCccgGCUC-CCCGg -3'
miRNA:   3'- -GGAGGgGGCU-UGGGGCG---CGGGaGGGU- -5'
9134 3' -65.1 NC_002512.2 + 397 0.67 0.565342
Target:  5'- cUCUCCCCCcgccgccucucgccuCCUCGCGCCCgcgaCCGa -3'
miRNA:   3'- -GGAGGGGGcuu------------GGGGCGCGGGag--GGU- -5'
9134 3' -65.1 NC_002512.2 + 417 0.67 0.562601
Target:  5'- aCCUCCCCCcccuuCCCCuccuccCGCUCaUCCCGc -3'
miRNA:   3'- -GGAGGGGGcuu--GGGGc-----GCGGG-AGGGU- -5'
9134 3' -65.1 NC_002512.2 + 544 0.69 0.457082
Target:  5'- uCCUCUCCUuuccCCCUGCuCCCUCCCc -3'
miRNA:   3'- -GGAGGGGGcuu-GGGGCGcGGGAGGGu -5'
9134 3' -65.1 NC_002512.2 + 589 0.67 0.599392
Target:  5'- gCUCCCCCGc-CUCUGCuuGCCCUUUCu -3'
miRNA:   3'- gGAGGGGGCuuGGGGCG--CGGGAGGGu -5'
9134 3' -65.1 NC_002512.2 + 942 0.67 0.580936
Target:  5'- cCCUCUCCUcu-CCUCGCcucGCCCUUCCu -3'
miRNA:   3'- -GGAGGGGGcuuGGGGCG---CGGGAGGGu -5'
9134 3' -65.1 NC_002512.2 + 1101 0.66 0.664316
Target:  5'- aCCUCCUUCGucCCCUGCGUCUUgCa- -3'
miRNA:   3'- -GGAGGGGGCuuGGGGCGCGGGAgGgu -5'
9134 3' -65.1 NC_002512.2 + 1106 0.68 0.494674
Target:  5'- uCCUCUCCCGucuCCgCCGuCucggucgccuccuccGCCCUCCCu -3'
miRNA:   3'- -GGAGGGGGCuu-GG-GGC-G---------------CGGGAGGGu -5'
9134 3' -65.1 NC_002512.2 + 1156 0.7 0.408413
Target:  5'- aCUCCCCU--ACCCCGCaucacGUCUUCCCc -3'
miRNA:   3'- gGAGGGGGcuUGGGGCG-----CGGGAGGGu -5'
9134 3' -65.1 NC_002512.2 + 1374 0.66 0.664316
Target:  5'- gCCUCCgUCucuCCuCCGCGuCCCUCUCGc -3'
miRNA:   3'- -GGAGGgGGcuuGG-GGCGC-GGGAGGGU- -5'
9134 3' -65.1 NC_002512.2 + 1471 0.75 0.218199
Target:  5'- cCCgCCCCCGccCCCCaGCGCCCcgUCCCc -3'
miRNA:   3'- -GGaGGGGGCuuGGGG-CGCGGG--AGGGu -5'
9134 3' -65.1 NC_002512.2 + 1587 0.71 0.363113
Target:  5'- uCgUCCCCCc-GCCCCGgguccCGUCCUCCCu -3'
miRNA:   3'- -GgAGGGGGcuUGGGGC-----GCGGGAGGGu -5'
9134 3' -65.1 NC_002512.2 + 1738 0.66 0.62721
Target:  5'- gCUCCgCgUGGACCUgagcuCGCGCCCgucggcgCCCAg -3'
miRNA:   3'- gGAGG-GgGCUUGGG-----GCGCGGGa------GGGU- -5'
9134 3' -65.1 NC_002512.2 + 1928 0.73 0.260103
Target:  5'- cCCUCCUcuCCGGcucCCCCGCGCUCcCCCGc -3'
miRNA:   3'- -GGAGGG--GGCUu--GGGGCGCGGGaGGGU- -5'
9134 3' -65.1 NC_002512.2 + 2236 0.69 0.473985
Target:  5'- uCUUCCUCCGGACCCgGgCGCuCCgucgCCUg -3'
miRNA:   3'- -GGAGGGGGCUUGGGgC-GCG-GGa---GGGu -5'
9134 3' -65.1 NC_002512.2 + 2437 0.69 0.464649
Target:  5'- cUCUCCCCCGGcagcgcgaaggugACCgCG-GCCCgcgCCCGc -3'
miRNA:   3'- -GGAGGGGGCU-------------UGGgGCgCGGGa--GGGU- -5'
9134 3' -65.1 NC_002512.2 + 2514 0.79 0.109014
Target:  5'- aUCUCCCCCGAcgccggcgGCCCCGgGCCUccuccgUCCCGu -3'
miRNA:   3'- -GGAGGGGGCU--------UGGGGCgCGGG------AGGGU- -5'
9134 3' -65.1 NC_002512.2 + 2565 0.73 0.28341
Target:  5'- cCCUUCCUCGGGCgCCgGCGCgUCUCCCc -3'
miRNA:   3'- -GGAGGGGGCUUG-GGgCGCG-GGAGGGu -5'
9134 3' -65.1 NC_002512.2 + 2639 0.69 0.465494
Target:  5'- gCUCgUCCUGAugCCCGCccguccgccGCgCCUCCCGg -3'
miRNA:   3'- gGAG-GGGGCUugGGGCG---------CG-GGAGGGU- -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.