miRNA display CGI


Results 1 - 20 of 27 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
18342 3' -58.5 NC_004681.1 + 27035 0.75 0.21177
Target:  5'- cGcgGUCGCCUUCGAGUccguggUCGGCGU-CGa -3'
miRNA:   3'- -CuaCAGCGGAAGCUCG------AGCCGCGcGC- -5'
18342 3' -58.5 NC_004681.1 + 9106 0.66 0.630655
Target:  5'- --cGcCGCUggcUCGGGCUCuGGCGuUGCGg -3'
miRNA:   3'- cuaCaGCGGa--AGCUCGAG-CCGC-GCGC- -5'
18342 3' -58.5 NC_004681.1 + 14580 0.66 0.630655
Target:  5'- --aGUCGCCUUCG-GCacCGGCaaGCu -3'
miRNA:   3'- cuaCAGCGGAAGCuCGa-GCCGcgCGc -5'
18342 3' -58.5 NC_004681.1 + 64752 0.67 0.599098
Target:  5'- cGAUGacauggcgaaUCGCCUUCGGGC--GGUGgGCa -3'
miRNA:   3'- -CUAC----------AGCGGAAGCUCGagCCGCgCGc -5'
18342 3' -58.5 NC_004681.1 + 10297 0.67 0.578175
Target:  5'- --cGUCGCCaUUCGc-CUC-GCGCGCGa -3'
miRNA:   3'- cuaCAGCGG-AAGCucGAGcCGCGCGC- -5'
18342 3' -58.5 NC_004681.1 + 30141 0.67 0.557416
Target:  5'- -----gGCCUgugggUCGGGCUCaGGCGgCGCGg -3'
miRNA:   3'- cuacagCGGA-----AGCUCGAG-CCGC-GCGC- -5'
18342 3' -58.5 NC_004681.1 + 24825 0.69 0.47704
Target:  5'- cGcgGUCGaCCUcaUCG-GCgUCGGCGgCGCGg -3'
miRNA:   3'- -CuaCAGC-GGA--AGCuCG-AGCCGC-GCGC- -5'
18342 3' -58.5 NC_004681.1 + 35490 0.7 0.424325
Target:  5'- --cGUCGCCUUCcuccgaccacccgcaGAuGCaguacUCGGCGCGCa -3'
miRNA:   3'- cuaCAGCGGAAG---------------CU-CG-----AGCCGCGCGc -5'
18342 3' -58.5 NC_004681.1 + 14475 0.7 0.420694
Target:  5'- --cGcCGCCUccgcCGAGCagGGCGCGCu -3'
miRNA:   3'- cuaCaGCGGAa---GCUCGagCCGCGCGc -5'
18342 3' -58.5 NC_004681.1 + 2524 0.71 0.344205
Target:  5'- ---aUCGCCUggaUUGAGCUCG-CGCGCa -3'
miRNA:   3'- cuacAGCGGA---AGCUCGAGCcGCGCGc -5'
18342 3' -58.5 NC_004681.1 + 51335 0.72 0.30624
Target:  5'- --cGUCGCCgcgGAGCUCGGCaaGCa -3'
miRNA:   3'- cuaCAGCGGaagCUCGAGCCGcgCGc -5'
18342 3' -58.5 NC_004681.1 + 39970 0.67 0.551228
Target:  5'- ----cCGCCUggUCGAGgaagcgcugcucgaaCUUGGCGCGCGc -3'
miRNA:   3'- cuacaGCGGA--AGCUC---------------GAGCCGCGCGC- -5'
18342 3' -58.5 NC_004681.1 + 40669 0.68 0.496644
Target:  5'- cAUGUCGCCgUUUGc-CUCGGCGaCGCu -3'
miRNA:   3'- cUACAGCGG-AAGCucGAGCCGC-GCGc -5'
18342 3' -58.5 NC_004681.1 + 56774 0.69 0.47704
Target:  5'- cGAUGaaGCCUUCGGGgaUGaGCGCaGCGa -3'
miRNA:   3'- -CUACagCGGAAGCUCgaGC-CGCG-CGC- -5'
18342 3' -58.5 NC_004681.1 + 65024 0.69 0.448378
Target:  5'- --cGUCGCCaccUCGuGCUCcaGGCGgGCGc -3'
miRNA:   3'- cuaCAGCGGa--AGCuCGAG--CCGCgCGC- -5'
18342 3' -58.5 NC_004681.1 + 3042 0.7 0.411698
Target:  5'- ---cUCGCUggUGAaCUCGGCGCGCGu -3'
miRNA:   3'- cuacAGCGGaaGCUcGAGCCGCGCGC- -5'
18342 3' -58.5 NC_004681.1 + 57858 0.7 0.376935
Target:  5'- cGGUGUCGCCUga-AGCUCGGCGa--- -3'
miRNA:   3'- -CUACAGCGGAagcUCGAGCCGCgcgc -5'
18342 3' -58.5 NC_004681.1 + 54152 0.72 0.30624
Target:  5'- uGUGcCGCgCUUCuaGGGCUCucgGGCGCGCGg -3'
miRNA:   3'- cUACaGCG-GAAG--CUCGAG---CCGCGCGC- -5'
18342 3' -58.5 NC_004681.1 + 13168 0.76 0.181599
Target:  5'- aGcgG-CGgCUUCGAGCUCGGCGaUGCGa -3'
miRNA:   3'- -CuaCaGCgGAAGCUCGAGCCGC-GCGC- -5'
18342 3' -58.5 NC_004681.1 + 14442 0.66 0.641187
Target:  5'- --gGUgGCC-UCGAuguuCUUGGCGCGCa -3'
miRNA:   3'- cuaCAgCGGaAGCUc---GAGCCGCGCGc -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.