miRNA display CGI


Results 1 - 13 of 13 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
21879 3' -50 NC_004902.1 + 13828 0.66 0.880934
Target:  5'- -cGGCAAGu--AUGCAGCagauauuuccagaaCCUGCAAu -3'
miRNA:   3'- gcUCGUUCuuuUACGUCG--------------GGACGUUu -5'
21879 3' -50 NC_004902.1 + 40840 0.66 0.875101
Target:  5'- gCGuGCAGGu-AAUGCAGCCagauCUGCu-- -3'
miRNA:   3'- -GCuCGUUCuuUUACGUCGG----GACGuuu -5'
21879 3' -50 NC_004902.1 + 29380 0.66 0.865644
Target:  5'- -cAGCAAGAccugcacaaaauuGGAU-CAGCCUUGCAAAc -3'
miRNA:   3'- gcUCGUUCU-------------UUUAcGUCGGGACGUUU- -5'
21879 3' -50 NC_004902.1 + 18865 0.67 0.829412
Target:  5'- -aGGC-AGAcgcAAGUGCAguaaguGCCCUGCAAAc -3'
miRNA:   3'- gcUCGuUCU---UUUACGU------CGGGACGUUU- -5'
21879 3' -50 NC_004902.1 + 34880 0.67 0.809347
Target:  5'- gGGGCGcuuguGAAAGgccuugGCGGUCCUGUAGAc -3'
miRNA:   3'- gCUCGUu----CUUUUa-----CGUCGGGACGUUU- -5'
21879 3' -50 NC_004902.1 + 1559 0.68 0.788408
Target:  5'- uCGAGC-AGAug--GCuGCCCgUGCAGAg -3'
miRNA:   3'- -GCUCGuUCUuuuaCGuCGGG-ACGUUU- -5'
21879 3' -50 NC_004902.1 + 13088 0.68 0.777643
Target:  5'- -aGGCAAGAAGggcuAUGCAGCCg-GCGGu -3'
miRNA:   3'- gcUCGUUCUUU----UACGUCGGgaCGUUu -5'
21879 3' -50 NC_004902.1 + 7747 0.69 0.732957
Target:  5'- gCGGGCGcaaAGAAAuAUGCAGagCUGCAAAg -3'
miRNA:   3'- -GCUCGU---UCUUU-UACGUCggGACGUUU- -5'
21879 3' -50 NC_004902.1 + 23300 0.7 0.662643
Target:  5'- gGAGCAGGuguAUGCAGUCaCcGCAGAu -3'
miRNA:   3'- gCUCGUUCuuuUACGUCGG-GaCGUUU- -5'
21879 3' -50 NC_004902.1 + 22092 0.7 0.626843
Target:  5'- --cGCAcGAGAugcGUGCAGCaCCUGCGAu -3'
miRNA:   3'- gcuCGUuCUUU---UACGUCG-GGACGUUu -5'
21879 3' -50 NC_004902.1 + 34352 0.8 0.181394
Target:  5'- aCGAGCAAG-GAGUGCuagaaacGGCCCUGCAc- -3'
miRNA:   3'- -GCUCGUUCuUUUACG-------UCGGGACGUuu -5'
21879 3' -50 NC_004902.1 + 32669 0.8 0.176661
Target:  5'- aCGGGCGAGGAGGUGacucaGGCCCUuGCAAGc -3'
miRNA:   3'- -GCUCGUUCUUUUACg----UCGGGA-CGUUU- -5'
21879 3' -50 NC_004902.1 + 10684 1.07 0.002423
Target:  5'- cCGAGCAAGAAAAUGCAGCCCUGCAAAa -3'
miRNA:   3'- -GCUCGUUCUUUUACGUCGGGACGUUU- -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.