miRNA display CGI


Results 1 - 11 of 11 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
23963 3' -57.3 NC_005262.1 + 13699 0.66 0.647726
Target:  5'- -uGGCGCGuGAGGucgaaGUGCCUGa-CGUGCu -3'
miRNA:   3'- ccUUGCGC-CUCC-----CACGGACgaGCAUG- -5'
23963 3' -57.3 NC_005262.1 + 18060 0.66 0.636995
Target:  5'- gGGAACGauguCGGAcGGGaUGCCgaacUGCUCGa-- -3'
miRNA:   3'- -CCUUGC----GCCU-CCC-ACGG----ACGAGCaug -5'
23963 3' -57.3 NC_005262.1 + 34143 0.67 0.61553
Target:  5'- cGGGCGCGGGcGGcaUGCC-GCUCGcUGCc -3'
miRNA:   3'- cCUUGCGCCUcCC--ACGGaCGAGC-AUG- -5'
23963 3' -57.3 NC_005262.1 + 33400 0.68 0.527762
Target:  5'- --cACGCGGcucgugcuguacucGGGGUGCgccUUGCUCGUGa -3'
miRNA:   3'- ccuUGCGCC--------------UCCCACG---GACGAGCAUg -5'
23963 3' -57.3 NC_005262.1 + 50422 0.69 0.480098
Target:  5'- cGGAGCGC-GAGGGccGCgUGCacgucgUCGUGCc -3'
miRNA:   3'- -CCUUGCGcCUCCCa-CGgACG------AGCAUG- -5'
23963 3' -57.3 NC_005262.1 + 1809 0.7 0.431817
Target:  5'- -cAAUGCGGAGcGGcGUgUGCUUGUGCu -3'
miRNA:   3'- ccUUGCGCCUC-CCaCGgACGAGCAUG- -5'
23963 3' -57.3 NC_005262.1 + 15797 0.7 0.422503
Target:  5'- uGGu-CGCGG-GGGUGCCggggaaGCUCG-GCa -3'
miRNA:   3'- -CCuuGCGCCuCCCACGGa-----CGAGCaUG- -5'
23963 3' -57.3 NC_005262.1 + 1908 0.7 0.407856
Target:  5'- cGAGCgggGCGGAGGGUGCggguugcguggcucgCUGgUCGUAa -3'
miRNA:   3'- cCUUG---CGCCUCCCACG---------------GACgAGCAUg -5'
23963 3' -57.3 NC_005262.1 + 14457 0.7 0.395304
Target:  5'- cGAGCGCGGcGcGcGCCUGCUCGUc- -3'
miRNA:   3'- cCUUGCGCCuCcCaCGGACGAGCAug -5'
23963 3' -57.3 NC_005262.1 + 35638 0.73 0.294088
Target:  5'- cGGcACGCGGcGGGcgaugggcuacucggUGCCgcaGCUCGUGCu -3'
miRNA:   3'- -CCuUGCGCCuCCC---------------ACGGa--CGAGCAUG- -5'
23963 3' -57.3 NC_005262.1 + 5027 1.11 0.000529
Target:  5'- cGGAACGCGGAGGGUGCCUGCUCGUACu -3'
miRNA:   3'- -CCUUGCGCCUCCCACGGACGAGCAUG- -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.