miRNA display CGI


Results 1 - 20 of 24 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
232 3' -51.1 AC_000008.1 + 9575 0.66 0.863166
Target:  5'- gGGGGCUGccAUGCG--GCAgggaUACGGc -3'
miRNA:   3'- -CCCCGACuuUGCGCuuUGUag--GUGCC- -5'
232 3' -51.1 AC_000008.1 + 17514 0.66 0.85363
Target:  5'- cGGGGCgcGGAcgcuuuucgccACGCcccucugGAGACAcugucUCCACGGc -3'
miRNA:   3'- -CCCCGa-CUU-----------UGCG-------CUUUGU-----AGGUGCC- -5'
232 3' -51.1 AC_000008.1 + 12189 0.66 0.850976
Target:  5'- uGGGCUGGcgguggcacccgcGCGCGcuggcAACGUCgGCGGc -3'
miRNA:   3'- cCCCGACUu------------UGCGCu----UUGUAGgUGCC- -5'
232 3' -51.1 AC_000008.1 + 6696 0.66 0.836441
Target:  5'- uGGGGUggguGAGCGCGGAggcguACAUgCCGCa- -3'
miRNA:   3'- -CCCCGac--UUUGCGCUU-----UGUA-GGUGcc -5'
232 3' -51.1 AC_000008.1 + 23899 0.66 0.836441
Target:  5'- cGGcGGCgacgGGGACGgGGacGACAcguccUCCAUGGu -3'
miRNA:   3'- -CC-CCGa---CUUUGCgCU--UUGU-----AGGUGCC- -5'
232 3' -51.1 AC_000008.1 + 32085 0.67 0.817432
Target:  5'- cGGuGGCUGcAGCGgcUGAAGCggCgGCGGa -3'
miRNA:   3'- -CC-CCGACuUUGC--GCUUUGuaGgUGCC- -5'
232 3' -51.1 AC_000008.1 + 549 0.67 0.807601
Target:  5'- cGGGaCUGAAAa-UGAGACAUauuaucugCCACGGa -3'
miRNA:   3'- cCCC-GACUUUgcGCUUUGUA--------GGUGCC- -5'
232 3' -51.1 AC_000008.1 + 6019 0.67 0.797569
Target:  5'- gGGGGUgGggGCGCGuu-CGUCCuCa- -3'
miRNA:   3'- -CCCCGaCuuUGCGCuuuGUAGGuGcc -5'
232 3' -51.1 AC_000008.1 + 18363 0.67 0.776948
Target:  5'- cGGGCUGGcGACgGCGAcGGCggCgGCGGg -3'
miRNA:   3'- cCCCGACU-UUG-CGCU-UUGuaGgUGCC- -5'
232 3' -51.1 AC_000008.1 + 17002 0.68 0.766384
Target:  5'- cGGGGCUcaGguACucCGAGGCGUCCugGc -3'
miRNA:   3'- -CCCCGA--CuuUGc-GCUUUGUAGGugCc -5'
232 3' -51.1 AC_000008.1 + 7668 0.68 0.75567
Target:  5'- aGGGUUgGAAGCGaCGAAugAgcUCCACaGGu -3'
miRNA:   3'- cCCCGA-CUUUGC-GCUUugU--AGGUG-CC- -5'
232 3' -51.1 AC_000008.1 + 24544 0.68 0.744817
Target:  5'- cGGGCUccucucccucgcGGu-CGCGAAACAgguucugCCGCGGc -3'
miRNA:   3'- cCCCGA------------CUuuGCGCUUUGUa------GGUGCC- -5'
232 3' -51.1 AC_000008.1 + 20231 0.68 0.744817
Target:  5'- gGGGGCUGGcgGGCGCGccaAAAUcugGUUCuCGGg -3'
miRNA:   3'- -CCCCGACU--UUGCGC---UUUG---UAGGuGCC- -5'
232 3' -51.1 AC_000008.1 + 10900 0.68 0.744817
Target:  5'- aGGGUUGAGuCGCGGGACc-CC-CGGu -3'
miRNA:   3'- cCCCGACUUuGCGCUUUGuaGGuGCC- -5'
232 3' -51.1 AC_000008.1 + 12558 0.7 0.631557
Target:  5'- -uGGCUG-AACGaGGAGCA-CCGCGGg -3'
miRNA:   3'- ccCCGACuUUGCgCUUUGUaGGUGCC- -5'
232 3' -51.1 AC_000008.1 + 49 0.71 0.597037
Target:  5'- aGGGGgUGGAguuugugacgugGCGCGggGCGUgggaACGGg -3'
miRNA:   3'- -CCCCgACUU------------UGCGCuuUGUAgg--UGCC- -5'
232 3' -51.1 AC_000008.1 + 49 0.71 0.597037
Target:  5'- aGGGGgUGGAguuugugacgugGCGCGggGCGUgggaACGGg -3'
miRNA:   3'- -CCCCgACUU------------UGCGCuuUGUAgg--UGCC- -5'
232 3' -51.1 AC_000008.1 + 11279 0.72 0.533581
Target:  5'- aGGGugcaGCUGAAGCGUGAuacgcgugaggcguACGUgCCGCGGc -3'
miRNA:   3'- -CCC----CGACUUUGCGCUu-------------UGUA-GGUGCC- -5'
232 3' -51.1 AC_000008.1 + 17105 0.73 0.474803
Target:  5'- uGGGCUGGAGCcCGAG--GUCCGCGu -3'
miRNA:   3'- cCCCGACUUUGcGCUUugUAGGUGCc -5'
232 3' -51.1 AC_000008.1 + 8463 0.73 0.443573
Target:  5'- aGGGGCUGGuugGugGCG--GCGUCgAUGGc -3'
miRNA:   3'- -CCCCGACU---UugCGCuuUGUAGgUGCC- -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.