miRNA display CGI


Results 1 - 20 of 21 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
12583 3' -50.1 NC_003345.1 + 1770 0.66 0.976487
Target:  5'- aAGGGACGGGGAaggauagaCGUAAagguuCCagcGGAAGCu -3'
miRNA:   3'- cUCUCUGCCCCU--------GUAUU-----GGa--CUUUCG- -5'
12583 3' -50.1 NC_003345.1 + 35887 0.66 0.973698
Target:  5'- uGAGcuGGAUGGGGugGU----UGGAAGCg -3'
miRNA:   3'- -CUC--UCUGCCCCugUAuuggACUUUCG- -5'
12583 3' -50.1 NC_003345.1 + 77196 0.66 0.970677
Target:  5'- cGGGGACGGgcacuucuguugGGGCuugaguGCCUGAAcGCa -3'
miRNA:   3'- cUCUCUGCC------------CCUGuau---UGGACUUuCG- -5'
12583 3' -50.1 NC_003345.1 + 77635 0.66 0.963539
Target:  5'- cGAGAGACGGcccguauGGACG-GGCa-GggGGCg -3'
miRNA:   3'- -CUCUCUGCC-------CCUGUaUUGgaCuuUCG- -5'
12583 3' -50.1 NC_003345.1 + 348 0.66 0.963539
Target:  5'- cGAGAGACGGcccguauGGACG-GGCa-GggGGCg -3'
miRNA:   3'- -CUCUCUGCC-------CCUGUaUUGgaCuuUCG- -5'
12583 3' -50.1 NC_003345.1 + 12342 0.67 0.956107
Target:  5'- cGGAGACGGcaaGGACGUuACCcGAAAcuccGCu -3'
miRNA:   3'- cUCUCUGCC---CCUGUAuUGGaCUUU----CG- -5'
12583 3' -50.1 NC_003345.1 + 66688 0.67 0.956107
Target:  5'- cAGAGACGGacGGGCuUGACgaGGAuacGGCg -3'
miRNA:   3'- cUCUCUGCC--CCUGuAUUGgaCUU---UCG- -5'
12583 3' -50.1 NC_003345.1 + 3386 0.67 0.956107
Target:  5'- gGAGAGAgCGGcGGAUu--GCgaUGGAAGCg -3'
miRNA:   3'- -CUCUCU-GCC-CCUGuauUGg-ACUUUCG- -5'
12583 3' -50.1 NC_003345.1 + 61974 0.67 0.956107
Target:  5'- aGGGGACaGGGACGc--CCUGAgcaucguagauAAGCg -3'
miRNA:   3'- cUCUCUGcCCCUGUauuGGACU-----------UUCG- -5'
12583 3' -50.1 NC_003345.1 + 55040 0.67 0.951808
Target:  5'- cGGAG-CGGGGACGgcgAGCgUGGugaauaguGGCg -3'
miRNA:   3'- cUCUCuGCCCCUGUa--UUGgACUu-------UCG- -5'
12583 3' -50.1 NC_003345.1 + 21521 0.68 0.937258
Target:  5'- ---cGGCGGGaGugAUGACCUuggcGAAGGUg -3'
miRNA:   3'- cucuCUGCCC-CugUAUUGGA----CUUUCG- -5'
12583 3' -50.1 NC_003345.1 + 77426 0.69 0.906686
Target:  5'- cGGGGGACaGGGGACGggGGCCgguuaGAacauuaagguagaGAGCg -3'
miRNA:   3'- -CUCUCUG-CCCCUGUa-UUGGa----CU-------------UUCG- -5'
12583 3' -50.1 NC_003345.1 + 139 0.69 0.906686
Target:  5'- cGGGGGACaGGGGACGggGGCCgguuaGAacauuaagguagaGAGCg -3'
miRNA:   3'- -CUCUCUG-CCCCUGUa-UUGGa----CU-------------UUCG- -5'
12583 3' -50.1 NC_003345.1 + 269 0.69 0.900529
Target:  5'- cGAGAGACGGGcaggggagaGACGgacgGGCa-GggGGCa -3'
miRNA:   3'- -CUCUCUGCCC---------CUGUa---UUGgaCuuUCG- -5'
12583 3' -50.1 NC_003345.1 + 44193 0.69 0.900529
Target:  5'- cGGuGGCGGGGugAuUggUCUGGAcAGCa -3'
miRNA:   3'- cUCuCUGCCCCugU-AuuGGACUU-UCG- -5'
12583 3' -50.1 NC_003345.1 + 77556 0.69 0.900529
Target:  5'- cGAGAGACGGGcaggggagaGACGgacgGGCa-GggGGCa -3'
miRNA:   3'- -CUCUCUGCCC---------CUGUa---UUGgaCuuUCG- -5'
12583 3' -50.1 NC_003345.1 + 11030 0.7 0.870505
Target:  5'- --uGGACGaGGGACAcgGACUcGAAAGCc -3'
miRNA:   3'- cucUCUGC-CCCUGUa-UUGGaCUUUCG- -5'
12583 3' -50.1 NC_003345.1 + 13176 0.71 0.788945
Target:  5'- cGGGGGACGGcccGGACuUAACCaGAAcGCg -3'
miRNA:   3'- -CUCUCUGCC---CCUGuAUUGGaCUUuCG- -5'
12583 3' -50.1 NC_003345.1 + 42652 0.72 0.758356
Target:  5'- -cGGGuCGGGGACGUuccuCgUGGAAGCc -3'
miRNA:   3'- cuCUCuGCCCCUGUAuu--GgACUUUCG- -5'
12583 3' -50.1 NC_003345.1 + 441 0.77 0.485821
Target:  5'- gGAGAGACGGGGAgAgacggacggAACCgGAGAGa -3'
miRNA:   3'- -CUCUCUGCCCCUgUa--------UUGGaCUUUCg -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.