miRNA display CGI


Results 1 - 16 of 16 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
26041 3' -51.9 NC_005342.2 + 4818 0.66 0.847368
Target:  5'- cGUCAGCcCG-ACCCGAgcGUCUGCc- -3'
miRNA:   3'- -CGGUCGaGCuUGGGCUacUAGAUGuu -5'
26041 3' -51.9 NC_005342.2 + 42692 0.66 0.813581
Target:  5'- cGCCGGCggaCGAGCgggcggcgcucucgaCCGAUGGcuauuucgUCUACGAu -3'
miRNA:   3'- -CGGUCGa--GCUUG---------------GGCUACU--------AGAUGUU- -5'
26041 3' -51.9 NC_005342.2 + 40101 0.66 0.809652
Target:  5'- gGCCGaCUCGAACCCGGuUGAagacggGCAAa -3'
miRNA:   3'- -CGGUcGAGCUUGGGCU-ACUaga---UGUU- -5'
26041 3' -51.9 NC_005342.2 + 26856 0.67 0.779196
Target:  5'- cGCuCGGCaaacacugCGAGCCCGAUGucaccuUCUGCc- -3'
miRNA:   3'- -CG-GUCGa-------GCUUGGGCUACu-----AGAUGuu -5'
26041 3' -51.9 NC_005342.2 + 23958 0.67 0.768695
Target:  5'- cGCCGGCUgCGGgaacaggcccgACUCGAUGAUCg---- -3'
miRNA:   3'- -CGGUCGA-GCU-----------UGGGCUACUAGauguu -5'
26041 3' -51.9 NC_005342.2 + 37574 0.68 0.736323
Target:  5'- uCCGGaCUCGAGCCCGAggccGGUgaGCGc -3'
miRNA:   3'- cGGUC-GAGCUUGGGCUa---CUAgaUGUu -5'
26041 3' -51.9 NC_005342.2 + 22850 0.68 0.736323
Target:  5'- cGCCGuGCUCGccguGCCCGGggUGAcggauugcuacgUCUACAAc -3'
miRNA:   3'- -CGGU-CGAGCu---UGGGCU--ACU------------AGAUGUU- -5'
26041 3' -51.9 NC_005342.2 + 17289 0.68 0.714149
Target:  5'- gGCCGGCgcagcguccUCGAcauGCCCGAggaUGAUCUGa-- -3'
miRNA:   3'- -CGGUCG---------AGCU---UGGGCU---ACUAGAUguu -5'
26041 3' -51.9 NC_005342.2 + 25909 0.68 0.71303
Target:  5'- cGCCGuGCaCGAucuguccGCCCGcGUGAUCUGCGu -3'
miRNA:   3'- -CGGU-CGaGCU-------UGGGC-UACUAGAUGUu -5'
26041 3' -51.9 NC_005342.2 + 22206 0.68 0.691622
Target:  5'- gGCCuGCUCGAugCCGAgacGggCcGCAAa -3'
miRNA:   3'- -CGGuCGAGCUugGGCUa--CuaGaUGUU- -5'
26041 3' -51.9 NC_005342.2 + 37271 0.69 0.668845
Target:  5'- cGUCAGCUCGccGACgCGuUGGUCUACc- -3'
miRNA:   3'- -CGGUCGAGC--UUGgGCuACUAGAUGuu -5'
26041 3' -51.9 NC_005342.2 + 29958 0.71 0.554527
Target:  5'- cGUCGGCUUGAGCuuGuUGAUCUGgGg -3'
miRNA:   3'- -CGGUCGAGCUUGggCuACUAGAUgUu -5'
26041 3' -51.9 NC_005342.2 + 39442 0.71 0.521103
Target:  5'- gGCaAGCUCGGcaaagacuGCUCGAUGGUCUGCc- -3'
miRNA:   3'- -CGgUCGAGCU--------UGGGCUACUAGAUGuu -5'
26041 3' -51.9 NC_005342.2 + 46194 0.72 0.477837
Target:  5'- aUCGGCUCGAACgCCG-UGAUCUaaGCGGg -3'
miRNA:   3'- cGGUCGAGCUUG-GGCuACUAGA--UGUU- -5'
26041 3' -51.9 NC_005342.2 + 24012 0.72 0.467296
Target:  5'- aGCCGGCgggcaCGAACCCGcacuacGUCUACAAg -3'
miRNA:   3'- -CGGUCGa----GCUUGGGCuac---UAGAUGUU- -5'
26041 3' -51.9 NC_005342.2 + 39220 1.09 0.001612
Target:  5'- cGCCAGCUCGAACCCGAUGAUCUACAAg -3'
miRNA:   3'- -CGGUCGAGCUUGGGCUACUAGAUGUU- -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.