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
11405 5' -54.4 NC_003085.1 + 5972 0.66 0.718559
Target:  5'- -cUGcUGGAGGcgguGGGCCGUuugucgagugggugcGUGACGUCa -3'
miRNA:   3'- aaGC-ACCUCCu---CUUGGCG---------------UACUGCAG- -5'
11405 5' -54.4 NC_003085.1 + 13812 0.66 0.714183
Target:  5'- -gCGUGGAGGu--GgCGCcAUGACGUg -3'
miRNA:   3'- aaGCACCUCCucuUgGCG-UACUGCAg -5'
11405 5' -54.4 NC_003085.1 + 15744 0.66 0.692115
Target:  5'- --aGUGGuAGGGGGuCCGguUGACGg- -3'
miRNA:   3'- aagCACC-UCCUCUuGGCguACUGCag -5'
11405 5' -54.4 NC_003085.1 + 47994 0.67 0.624829
Target:  5'- gUCGcGGAgGGAGGACgCGgcgcagguCAUGGCGUCu -3'
miRNA:   3'- aAGCaCCU-CCUCUUG-GC--------GUACUGCAG- -5'
11405 5' -54.4 NC_003085.1 + 7680 0.67 0.624829
Target:  5'- -cCGUGGGuguGGAGAAuccaguUCGCGagggUGACGUCa -3'
miRNA:   3'- aaGCACCU---CCUCUU------GGCGU----ACUGCAG- -5'
11405 5' -54.4 NC_003085.1 + 18449 0.68 0.55775
Target:  5'- gUCGUGGAcguccuGGAGGAgCGCGUGgACuUCa -3'
miRNA:   3'- aAGCACCU------CCUCUUgGCGUAC-UGcAG- -5'
11405 5' -54.4 NC_003085.1 + 39017 0.69 0.546737
Target:  5'- gUCGcGGAGGAGGcgACgGCAUG-CGUg -3'
miRNA:   3'- aAGCaCCUCCUCU--UGgCGUACuGCAg -5'
11405 5' -54.4 NC_003085.1 + 14030 0.69 0.535795
Target:  5'- aUCGcgccgacauUGGAGGcGAGCgGgAUGACGUCc -3'
miRNA:   3'- aAGC---------ACCUCCuCUUGgCgUACUGCAG- -5'
11405 5' -54.4 NC_003085.1 + 3171 0.72 0.375156
Target:  5'- -aCGUGGAGGAGGGCUGaCAUGGg--- -3'
miRNA:   3'- aaGCACCUCCUCUUGGC-GUACUgcag -5'
11405 5' -54.4 NC_003085.1 + 43441 0.73 0.315833
Target:  5'- gUCGU-GAGGGGuGCCGCGcugcugagcgaUGACGUCa -3'
miRNA:   3'- aAGCAcCUCCUCuUGGCGU-----------ACUGCAG- -5'
11405 5' -54.4 NC_003085.1 + 48563 1.06 0.001535
Target:  5'- cUUCGUGGAGGAGAACCGCAUGACGUCc -3'
miRNA:   3'- -AAGCACCUCCUCUUGGCGUACUGCAG- -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.