miRNA display CGI


Results 1 - 20 of 32 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
18477 3' -58.9 NC_004681.1 + 48493 1.07 0.00097
Target:  5'- aAGGAACUCGCCGCGGAGAACCCGGAGc -3'
miRNA:   3'- -UCCUUGAGCGGCGCCUCUUGGGCCUC- -5'
18477 3' -58.9 NC_004681.1 + 57343 0.67 0.578296
Target:  5'- --aAGCUCGCguacCGCGGGGAGCCCcaaGGGc -3'
miRNA:   3'- uccUUGAGCG----GCGCCUCUUGGG---CCUc -5'
18477 3' -58.9 NC_004681.1 + 5071 0.66 0.59906
Target:  5'- uGGAAUUCggcgauguGCgCGUGGAGAACCaccaaguGGAGg -3'
miRNA:   3'- uCCUUGAG--------CG-GCGCCUCUUGGg------CCUC- -5'
18477 3' -58.9 NC_004681.1 + 40116 0.66 0.619925
Target:  5'- cGGGGgUCGCCagguCGGuGAccGCCCGGGa -3'
miRNA:   3'- uCCUUgAGCGGc---GCCuCU--UGGGCCUc -5'
18477 3' -58.9 NC_004681.1 + 33067 0.66 0.630376
Target:  5'- ----uCUCcCCGCGGAGAugUgGGAGg -3'
miRNA:   3'- uccuuGAGcGGCGCCUCUugGgCCUC- -5'
18477 3' -58.9 NC_004681.1 + 68806 0.66 0.630376
Target:  5'- gAGGAGCUgGugaaggacCCGgGGAGuaccuACCgGGAGg -3'
miRNA:   3'- -UCCUUGAgC--------GGCgCCUCu----UGGgCCUC- -5'
18477 3' -58.9 NC_004681.1 + 14380 0.66 0.630376
Target:  5'- -----aUCGCCGCGGAGAACCg---- -3'
miRNA:   3'- uccuugAGCGGCGCCUCUUGGgccuc -5'
18477 3' -58.9 NC_004681.1 + 7551 0.66 0.640829
Target:  5'- cGGGACugUCGUCuacacgGUGGAGGACggCCGGGGa -3'
miRNA:   3'- uCCUUG--AGCGG------CGCCUCUUG--GGCCUC- -5'
18477 3' -58.9 NC_004681.1 + 59314 0.66 0.651274
Target:  5'- cGGGGACUC-CUGCGuGgccAGGAcCCCGGAc -3'
miRNA:   3'- -UCCUUGAGcGGCGC-C---UCUU-GGGCCUc -5'
18477 3' -58.9 NC_004681.1 + 45085 0.67 0.578296
Target:  5'- gAGGccCUCGCCGCGGucucgcucaAGA--CCGGGGc -3'
miRNA:   3'- -UCCuuGAGCGGCGCC---------UCUugGGCCUC- -5'
18477 3' -58.9 NC_004681.1 + 12665 0.67 0.537303
Target:  5'- uGGGGGCacccccaucacCGCCGCGGAGcucAACCguaUGGAGg -3'
miRNA:   3'- -UCCUUGa----------GCGGCGCCUC---UUGG---GCCUC- -5'
18477 3' -58.9 NC_004681.1 + 62581 0.73 0.273406
Target:  5'- cGGGAGCgCGCCgagGCGGAGAAgCaGGAGa -3'
miRNA:   3'- -UCCUUGaGCGG---CGCCUCUUgGgCCUC- -5'
18477 3' -58.9 NC_004681.1 + 9132 0.73 0.280064
Target:  5'- cGGGcucguacccGAC-CGCCGCGGAGAuCgCGGAGa -3'
miRNA:   3'- -UCC---------UUGaGCGGCGCCUCUuGgGCCUC- -5'
18477 3' -58.9 NC_004681.1 + 39349 0.73 0.280064
Target:  5'- gAGGGGC-CGCUGUGGAucGGCCUGGGGg -3'
miRNA:   3'- -UCCUUGaGCGGCGCCUc-UUGGGCCUC- -5'
18477 3' -58.9 NC_004681.1 + 51708 0.71 0.322723
Target:  5'- gGGGGAUUCuCCcCGGGGAACCUGGuGg -3'
miRNA:   3'- -UCCUUGAGcGGcGCCUCUUGGGCCuC- -5'
18477 3' -58.9 NC_004681.1 + 10969 0.7 0.378382
Target:  5'- -uGAAgUCGgguaCGUGGAGAACCCGGGc -3'
miRNA:   3'- ucCUUgAGCg---GCGCCUCUUGGGCCUc -5'
18477 3' -58.9 NC_004681.1 + 8374 0.7 0.412957
Target:  5'- --uGGCUCG-CGCGGucaucauGAACCCGGAGc -3'
miRNA:   3'- uccUUGAGCgGCGCCu------CUUGGGCCUC- -5'
18477 3' -58.9 NC_004681.1 + 2625 0.69 0.42914
Target:  5'- cGGGGAUUacguucaCGCCGCGGAcGGcacccuaGCCCGGGu -3'
miRNA:   3'- -UCCUUGA-------GCGGCGCCU-CU-------UGGGCCUc -5'
18477 3' -58.9 NC_004681.1 + 1256 0.69 0.458805
Target:  5'- gGGGAACUCGUgGCccccgacaugucGGAGGgcGCCCaGGAa -3'
miRNA:   3'- -UCCUUGAGCGgCG------------CCUCU--UGGG-CCUc -5'
18477 3' -58.9 NC_004681.1 + 32220 0.66 0.651274
Target:  5'- cGuGGGC-CGCCGCGGugaccgcuuccuGGAugCCGGuGa -3'
miRNA:   3'- uC-CUUGaGCGGCGCC------------UCUugGGCCuC- -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.