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
30806 3' -57.8 NC_006552.1 + 64660 0.66 0.628281
Target:  5'- -cCGCCGGUCAGCUUCGCgaCAGa--- -3'
miRNA:   3'- guGCGGCUAGUCGGGGUGg-GUCaacu -5'
30806 3' -57.8 NC_006552.1 + 43752 0.66 0.60683
Target:  5'- aCGCGCCc--CAG-CCCGCCCAGgucGAa -3'
miRNA:   3'- -GUGCGGcuaGUCgGGGUGGGUCaa-CU- -5'
30806 3' -57.8 NC_006552.1 + 22325 0.66 0.595063
Target:  5'- uGCGCCGGUCggucgauAGCCUCAUCCGa---- -3'
miRNA:   3'- gUGCGGCUAG-------UCGGGGUGGGUcaacu -5'
30806 3' -57.8 NC_006552.1 + 34061 0.66 0.585462
Target:  5'- uCGCGCCGAUCAGCagu-UCCAGcUUGu -3'
miRNA:   3'- -GUGCGGCUAGUCGggguGGGUC-AACu -5'
30806 3' -57.8 NC_006552.1 + 60166 0.67 0.57483
Target:  5'- -uCGCCGGcCAGCacuuccgccggaUCCGCCCAGgUGAa -3'
miRNA:   3'- guGCGGCUaGUCG------------GGGUGGGUCaACU- -5'
30806 3' -57.8 NC_006552.1 + 46117 0.67 0.57483
Target:  5'- uCACGCCGAgCAGCUCCGCUg------ -3'
miRNA:   3'- -GUGCGGCUaGUCGGGGUGGgucaacu -5'
30806 3' -57.8 NC_006552.1 + 39224 0.67 0.561076
Target:  5'- cCAUGCCGAUCAGCUCgGCaugcucugggaacaCCAGg--- -3'
miRNA:   3'- -GUGCGGCUAGUCGGGgUG--------------GGUCaacu -5'
30806 3' -57.8 NC_006552.1 + 45404 0.68 0.491961
Target:  5'- gGCGCCGA-CGaauuCCCCGCCCGGg--- -3'
miRNA:   3'- gUGCGGCUaGUc---GGGGUGGGUCaacu -5'
30806 3' -57.8 NC_006552.1 + 48701 0.68 0.48197
Target:  5'- gGCGCCGucCGGCCCgccuCACCCAaagaccugGUUGAa -3'
miRNA:   3'- gUGCGGCuaGUCGGG----GUGGGU--------CAACU- -5'
30806 3' -57.8 NC_006552.1 + 25993 0.69 0.452608
Target:  5'- aCACGCUcaggcuugccgGAUCAGCgCCAUCCAGa--- -3'
miRNA:   3'- -GUGCGG-----------CUAGUCGgGGUGGGUCaacu -5'
30806 3' -57.8 NC_006552.1 + 49749 0.7 0.388144
Target:  5'- uGCGCCGAUCAccguuCCCaCGCCCGGa--- -3'
miRNA:   3'- gUGCGGCUAGUc----GGG-GUGGGUCaacu -5'
30806 3' -57.8 NC_006552.1 + 52063 0.72 0.293291
Target:  5'- gGCGCCGAgggucgaggcugcacCAGCaCCCGCCCAGa--- -3'
miRNA:   3'- gUGCGGCUa--------------GUCG-GGGUGGGUCaacu -5'
30806 3' -57.8 NC_006552.1 + 29805 0.72 0.285498
Target:  5'- -uCGCCGGcgGGCCgCCACCCAGcgUGAc -3'
miRNA:   3'- guGCGGCUagUCGG-GGUGGGUCa-ACU- -5'
30806 3' -57.8 NC_006552.1 + 26169 0.72 0.285498
Target:  5'- gCGCGCgCGAUCAGCagacgCCCGCgCCAGUa-- -3'
miRNA:   3'- -GUGCG-GCUAGUCG-----GGGUG-GGUCAacu -5'
30806 3' -57.8 NC_006552.1 + 56385 0.73 0.245859
Target:  5'- -cCGCCGAgc-GCCCCACCCGGg--- -3'
miRNA:   3'- guGCGGCUaguCGGGGUGGGUCaacu -5'
30806 3' -57.8 NC_006552.1 + 26244 0.77 0.145654
Target:  5'- uGCGCCGGUCGGCCCaGCuCCGGUa-- -3'
miRNA:   3'- gUGCGGCUAGUCGGGgUG-GGUCAacu -5'
30806 3' -57.8 NC_006552.1 + 5765 1.08 0.0008
Target:  5'- gCACGCCGAUCAGCCCCACCCAGUUGAu -3'
miRNA:   3'- -GUGCGGCUAGUCGGGGUGGGUCAACU- -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.