miRNA display CGI


Results 1 - 20 of 22 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
22345 3' -61.2 NC_005045.1 + 2277 0.66 0.353456
Target:  5'- aAGCaGcGGCGGCCAGGuAGCcGGCaCUGc -3'
miRNA:   3'- cUCGaC-CUGCCGGUCC-UUGaCCG-GGC- -5'
22345 3' -61.2 NC_005045.1 + 25941 0.66 0.353456
Target:  5'- uGAGCUGGccCGGCaggcgcucgaAGGGcaccuGCUGGCUCa -3'
miRNA:   3'- -CUCGACCu-GCCGg---------UCCU-----UGACCGGGc -5'
22345 3' -61.2 NC_005045.1 + 34824 0.66 0.352624
Target:  5'- uGGCgcGGGCGGCgCAGGGggaugaaGC-GGCCCu -3'
miRNA:   3'- cUCGa-CCUGCCG-GUCCU-------UGaCCGGGc -5'
22345 3' -61.2 NC_005045.1 + 33829 0.66 0.345202
Target:  5'- uGGCucagaUGGAUgaGGCCGccccuGGGCUGGCCCGc -3'
miRNA:   3'- cUCG-----ACCUG--CCGGUc----CUUGACCGGGC- -5'
22345 3' -61.2 NC_005045.1 + 31049 0.66 0.329113
Target:  5'- aAGCaGGACguguucaacuGGCggaAGGAACUGGCUCa -3'
miRNA:   3'- cUCGaCCUG----------CCGg--UCCUUGACCGGGc -5'
22345 3' -61.2 NC_005045.1 + 2709 0.66 0.329113
Target:  5'- uGGCcagGGcaGCGGCCAGGuuaaacucCUGGUCCa -3'
miRNA:   3'- cUCGa--CC--UGCCGGUCCuu------GACCGGGc -5'
22345 3' -61.2 NC_005045.1 + 5347 0.66 0.306031
Target:  5'- -cGCUcGGCGGCCuGGAGCcgucGGCUCa -3'
miRNA:   3'- cuCGAcCUGCCGGuCCUUGa---CCGGGc -5'
22345 3' -61.2 NC_005045.1 + 10798 0.67 0.296421
Target:  5'- gGAGCUGGAUgugcuccucgcucaGGCCGGuGGC-GGCCaCGg -3'
miRNA:   3'- -CUCGACCUG--------------CCGGUCcUUGaCCGG-GC- -5'
22345 3' -61.2 NC_005045.1 + 31711 0.67 0.263637
Target:  5'- gGAaCUGGaacgcaucguaGCGGaCCAGGAACUgccGGCCCu -3'
miRNA:   3'- -CUcGACC-----------UGCC-GGUCCUUGA---CCGGGc -5'
22345 3' -61.2 NC_005045.1 + 4673 0.67 0.263637
Target:  5'- uGAGUUGGuucGCGGCaAGGAA-UGGCCaCGg -3'
miRNA:   3'- -CUCGACC---UGCCGgUCCUUgACCGG-GC- -5'
22345 3' -61.2 NC_005045.1 + 35176 0.68 0.257053
Target:  5'- gGAGCUuguugugcGcGAaGGCCAcaaagcuacGGAACUGGCCCa -3'
miRNA:   3'- -CUCGA--------C-CUgCCGGU---------CCUUGACCGGGc -5'
22345 3' -61.2 NC_005045.1 + 5058 0.68 0.257053
Target:  5'- cGA-CUGGACGGCgC-GGAuggcGCUGGCCUu -3'
miRNA:   3'- -CUcGACCUGCCG-GuCCU----UGACCGGGc -5'
22345 3' -61.2 NC_005045.1 + 16647 0.68 0.250604
Target:  5'- uGGCUGGGCcgcaaGGCCGcuGAGgUGGUCCGg -3'
miRNA:   3'- cUCGACCUG-----CCGGUc-CUUgACCGGGC- -5'
22345 3' -61.2 NC_005045.1 + 28319 0.68 0.2468
Target:  5'- -cGCUGG-CGGCauguccgcccuucaaCAGGGAUUGGCCa- -3'
miRNA:   3'- cuCGACCuGCCG---------------GUCCUUGACCGGgc -5'
22345 3' -61.2 NC_005045.1 + 34516 0.68 0.24429
Target:  5'- cAGCaUGGuggcgcUGGUCAGGccGCUGGCCCGc -3'
miRNA:   3'- cUCG-ACCu-----GCCGGUCCu-UGACCGGGC- -5'
22345 3' -61.2 NC_005045.1 + 37114 0.69 0.220345
Target:  5'- -------uCGGCCAGGGACUGGCCUu -3'
miRNA:   3'- cucgaccuGCCGGUCCUUGACCGGGc -5'
22345 3' -61.2 NC_005045.1 + 29623 0.7 0.183264
Target:  5'- aGGCUGG-CcGCCAGGAACUGcauGCCUa -3'
miRNA:   3'- cUCGACCuGcCGGUCCUUGAC---CGGGc -5'
22345 3' -61.2 NC_005045.1 + 33080 0.7 0.183264
Target:  5'- cAGCgacGGugGGCCGGGAcugUGGuCCCGc -3'
miRNA:   3'- cUCGa--CCugCCGGUCCUug-ACC-GGGC- -5'
22345 3' -61.2 NC_005045.1 + 22907 0.7 0.178441
Target:  5'- gGAGCgGGACaGGgCGGGAA--GGCCCGu -3'
miRNA:   3'- -CUCGaCCUG-CCgGUCCUUgaCCGGGC- -5'
22345 3' -61.2 NC_005045.1 + 31264 0.7 0.173731
Target:  5'- cGAGCUGGGCGuuacgaacaauGCCucuauccuGGGAUUGGCCgGu -3'
miRNA:   3'- -CUCGACCUGC-----------CGGu-------CCUUGACCGGgC- -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.