miRNA display CGI


Results 1 - 17 of 17 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
26543 5' -54.7 NC_005357.1 + 16399 0.66 0.676159
Target:  5'- cGCGGGCuuugaugCCAuc-GCCGAGGAaGCc -3'
miRNA:   3'- -CGCCCGuua----GGUccuCGGCUCUUaCG- -5'
26543 5' -54.7 NC_005357.1 + 42336 0.66 0.675041
Target:  5'- uGCGGGgGAUgCCGGG-GCaGAGGAacacgcaaaacccUGCa -3'
miRNA:   3'- -CGCCCgUUA-GGUCCuCGgCUCUU-------------ACG- -5'
26543 5' -54.7 NC_005357.1 + 38286 0.66 0.66496
Target:  5'- gGUGGGCGGcuUCCAcuauGcGCCGGGAA-GCa -3'
miRNA:   3'- -CGCCCGUU--AGGUc---CuCGGCUCUUaCG- -5'
26543 5' -54.7 NC_005357.1 + 10059 0.66 0.653729
Target:  5'- uGCuGGGCGG-CCGGG-GCCucGGcgGCg -3'
miRNA:   3'- -CG-CCCGUUaGGUCCuCGGcuCUuaCG- -5'
26543 5' -54.7 NC_005357.1 + 18042 0.66 0.653729
Target:  5'- gGCGGGCugcUUGGGGGCCuuaccggcgcGGggUGCg -3'
miRNA:   3'- -CGCCCGuuaGGUCCUCGGc---------UCuuACG- -5'
26543 5' -54.7 NC_005357.1 + 36890 0.67 0.619954
Target:  5'- gGCGGGCGAcCUGGGcggaaccugggcGGCCG-GcGUGCc -3'
miRNA:   3'- -CGCCCGUUaGGUCC------------UCGGCuCuUACG- -5'
26543 5' -54.7 NC_005357.1 + 28882 0.67 0.608705
Target:  5'- cGUGGGCAccgagUCAGGcGGCCGAcaguucggcgcgGAcgGCa -3'
miRNA:   3'- -CGCCCGUua---GGUCC-UCGGCU------------CUuaCG- -5'
26543 5' -54.7 NC_005357.1 + 19063 0.67 0.605334
Target:  5'- aGCGGGCAcgCCAccguguucaucggcGGcgaGGCCGucGAAUuGCg -3'
miRNA:   3'- -CGCCCGUuaGGU--------------CC---UCGGCu-CUUA-CG- -5'
26543 5' -54.7 NC_005357.1 + 41149 0.67 0.597476
Target:  5'- aGUGGGuCGAgggCCGGGAauaccggcgcucGCCG-GAcgGCg -3'
miRNA:   3'- -CGCCC-GUUa--GGUCCU------------CGGCuCUuaCG- -5'
26543 5' -54.7 NC_005357.1 + 30884 0.67 0.597476
Target:  5'- gGCGGGCAGUCCuaucAGGAuGCCcgcuc-GCa -3'
miRNA:   3'- -CGCCCGUUAGG----UCCU-CGGcucuuaCG- -5'
26543 5' -54.7 NC_005357.1 + 17677 0.67 0.594113
Target:  5'- gGCGGGCugggcguaggcgaaGcgCCAcucGGGCCGGGaAAUGCc -3'
miRNA:   3'- -CGCCCG--------------UuaGGUc--CUCGGCUC-UUACG- -5'
26543 5' -54.7 NC_005357.1 + 3802 0.68 0.552962
Target:  5'- uCGGGCAGcaugaCCAGGcGGUCGGGGGcGCc -3'
miRNA:   3'- cGCCCGUUa----GGUCC-UCGGCUCUUaCG- -5'
26543 5' -54.7 NC_005357.1 + 7859 0.7 0.44721
Target:  5'- gGCGGGCuucgcGGUUCAGGcuucggccgauGGUCGGGaAAUGCu -3'
miRNA:   3'- -CGCCCG-----UUAGGUCC-----------UCGGCUC-UUACG- -5'
26543 5' -54.7 NC_005357.1 + 10416 0.72 0.336694
Target:  5'- cGUGGGC-GUCCAGcGuGUCGAGggUuucGCa -3'
miRNA:   3'- -CGCCCGuUAGGUC-CuCGGCUCuuA---CG- -5'
26543 5' -54.7 NC_005357.1 + 8269 0.75 0.221791
Target:  5'- cCGGGCAuucggcuUCCAGGGccacgcuGCCGGGGcaGUGCa -3'
miRNA:   3'- cGCCCGUu------AGGUCCU-------CGGCUCU--UACG- -5'
26543 5' -54.7 NC_005357.1 + 29075 0.75 0.210685
Target:  5'- aGCGGGUcAUCCucGGGcGCCGAGGucaggcccGUGCg -3'
miRNA:   3'- -CGCCCGuUAGG--UCCuCGGCUCU--------UACG- -5'
26543 5' -54.7 NC_005357.1 + 3047 1.15 0.000308
Target:  5'- cGCGGGCAAUCCAGGAGCCGAGAAUGCg -3'
miRNA:   3'- -CGCCCGUUAGGUCCUCGGCUCUUACG- -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.