miRNA display CGI


Results 1 - 18 of 18 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
12680 3' -50 NC_003345.1 + 21621 0.66 0.978391
Target:  5'- gAGAGGAUGa-CACGGCgGCcuUCGAGGu -3'
miRNA:   3'- -UCUCUUAUagGUGCUGgCG--AGCUUCu -5'
12680 3' -50 NC_003345.1 + 65045 0.66 0.978391
Target:  5'- uGAGAAUcaaCCACGAUgCGUUCGuGGAu -3'
miRNA:   3'- uCUCUUAua-GGUGCUG-GCGAGCuUCU- -5'
12680 3' -50 NC_003345.1 + 54075 0.66 0.97495
Target:  5'- cGAGAGUGUCacgaauccgacuaaCACGACCGg-CGgcGAg -3'
miRNA:   3'- uCUCUUAUAG--------------GUGCUGGCgaGCuuCU- -5'
12680 3' -50 NC_003345.1 + 65423 0.66 0.97294
Target:  5'- -cAGAGUGUCCACG-UCGCgcauccacucaUCGAGGu -3'
miRNA:   3'- ucUCUUAUAGGUGCuGGCG-----------AGCUUCu -5'
12680 3' -50 NC_003345.1 + 11523 0.66 0.969869
Target:  5'- cGGAGGAaaugaugcgcuUGUucCCACGgcuccagaugaACCGUUCGAGGAa -3'
miRNA:   3'- -UCUCUU-----------AUA--GGUGC-----------UGGCGAGCUUCU- -5'
12680 3' -50 NC_003345.1 + 875 0.67 0.959179
Target:  5'- cGGAGAcguacuUAcCCGCccccGACCGUUCGggGGg -3'
miRNA:   3'- -UCUCUu-----AUaGGUG----CUGGCGAGCuuCU- -5'
12680 3' -50 NC_003345.1 + 2495 0.68 0.941238
Target:  5'- cGGGAGUGUCC-CGACUua-CGAGGAa -3'
miRNA:   3'- uCUCUUAUAGGuGCUGGcgaGCUUCU- -5'
12680 3' -50 NC_003345.1 + 29409 0.68 0.936063
Target:  5'- -------uUCCACGACCGUccCGAGGAa -3'
miRNA:   3'- ucucuuauAGGUGCUGGCGa-GCUUCU- -5'
12680 3' -50 NC_003345.1 + 74431 0.68 0.936063
Target:  5'- cGGAGAAUAUCCu---CCGCaaGGAGGu -3'
miRNA:   3'- -UCUCUUAUAGGugcuGGCGagCUUCU- -5'
12680 3' -50 NC_003345.1 + 23249 0.68 0.930607
Target:  5'- aGGAGAGUcgCCGucuCCGCUCGGucggGGAg -3'
miRNA:   3'- -UCUCUUAuaGGUgcuGGCGAGCU----UCU- -5'
12680 3' -50 NC_003345.1 + 20500 0.68 0.930607
Target:  5'- gAGAGAugAUGUCCACcucgucGCCGUUgcCGAAGGg -3'
miRNA:   3'- -UCUCU--UAUAGGUGc-----UGGCGA--GCUUCU- -5'
12680 3' -50 NC_003345.1 + 58114 0.69 0.912547
Target:  5'- cGAGGAagacguUAUCCGCGACC--UCGAAGc -3'
miRNA:   3'- uCUCUU------AUAGGUGCUGGcgAGCUUCu -5'
12680 3' -50 NC_003345.1 + 30513 0.69 0.899108
Target:  5'- cGAGGuggguUGUCCACuuCUGCUCGaAAGAg -3'
miRNA:   3'- uCUCUu----AUAGGUGcuGGCGAGC-UUCU- -5'
12680 3' -50 NC_003345.1 + 16919 0.7 0.852395
Target:  5'- cGGGGAacGUGg-CACGACCGCcgUGAAGAa -3'
miRNA:   3'- -UCUCU--UAUagGUGCUGGCGa-GCUUCU- -5'
12680 3' -50 NC_003345.1 + 21764 0.72 0.797263
Target:  5'- cGAGggUGUcCCGCaGGCCGC-CGAccAGAu -3'
miRNA:   3'- uCUCuuAUA-GGUG-CUGGCGaGCU--UCU- -5'
12680 3' -50 NC_003345.1 + 69770 0.76 0.5708
Target:  5'- uGGAGGAcGUgCGCGACCGCUCGuacuGGu -3'
miRNA:   3'- -UCUCUUaUAgGUGCUGGCGAGCuu--CU- -5'
12680 3' -50 NC_003345.1 + 66004 0.76 0.547879
Target:  5'- -cGGAAUGUCCACGucgaaauACUGCUCGggGu -3'
miRNA:   3'- ucUCUUAUAGGUGC-------UGGCGAGCuuCu -5'
12680 3' -50 NC_003345.1 + 72925 1.1 0.004947
Target:  5'- gAGAGAAUAUCCACGACCGCUCGAAGAc -3'
miRNA:   3'- -UCUCUUAUAGGUGCUGGCGAGCUUCU- -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.