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
11878 3' -54.7 NC_003266.2 + 11221 0.66 0.615203
Target:  5'- cGUGCGcGCGCGcaGGGCUgAucCCCGUc -3'
miRNA:   3'- -CACGUaUGCGCa-CUCGGgUuuGGGCG- -5'
11878 3' -54.7 NC_003266.2 + 24132 0.66 0.615203
Target:  5'- --uCGUGCGCuUGAGCaccgCCAGACgCGCg -3'
miRNA:   3'- cacGUAUGCGcACUCG----GGUUUGgGCG- -5'
11878 3' -54.7 NC_003266.2 + 33421 0.66 0.615203
Target:  5'- -gGCAUcAUGCGcaggGAGUCCcuGGACCCGg -3'
miRNA:   3'- caCGUA-UGCGCa---CUCGGG--UUUGGGCg -5'
11878 3' -54.7 NC_003266.2 + 22179 0.66 0.61406
Target:  5'- -gGC-UGCGUGcccaccaUGGGCCggCAGACCUGCa -3'
miRNA:   3'- caCGuAUGCGC-------ACUCGG--GUUUGGGCG- -5'
11878 3' -54.7 NC_003266.2 + 13298 0.66 0.603777
Target:  5'- gGUGCugccGCaGCG-GuGCCCGAGgCCGCc -3'
miRNA:   3'- -CACGua--UG-CGCaCuCGGGUUUgGGCG- -5'
11878 3' -54.7 NC_003266.2 + 16224 0.66 0.591239
Target:  5'- cGUGCAgugGCGCGggcgGAaagugcguccgguGCUgAGACCCGg -3'
miRNA:   3'- -CACGUa--UGCGCa---CU-------------CGGgUUUGGGCg -5'
11878 3' -54.7 NC_003266.2 + 13056 0.67 0.558432
Target:  5'- -gGCGUACauGC-UGGGCCCAuguuGCgCGCg -3'
miRNA:   3'- caCGUAUG--CGcACUCGGGUu---UGgGCG- -5'
11878 3' -54.7 NC_003266.2 + 17937 0.67 0.557309
Target:  5'- -cGCAaugggACGCGUGgugggcaGGCCCAGuuucaCCGCc -3'
miRNA:   3'- caCGUa----UGCGCAC-------UCGGGUUug---GGCG- -5'
11878 3' -54.7 NC_003266.2 + 15753 0.67 0.536106
Target:  5'- aUGCGUGCgGCGcGAGCCUu-GCUgCGCa -3'
miRNA:   3'- cACGUAUG-CGCaCUCGGGuuUGG-GCG- -5'
11878 3' -54.7 NC_003266.2 + 23730 0.68 0.480753
Target:  5'- -cGCc-GCGCGUGccccccaagcgccAGCCCAAcggcACCUGCg -3'
miRNA:   3'- caCGuaUGCGCAC-------------UCGGGUU----UGGGCG- -5'
11878 3' -54.7 NC_003266.2 + 15888 0.68 0.471269
Target:  5'- cUGCcgGCGC-UGGcGCCUGAAgCCGCg -3'
miRNA:   3'- cACGuaUGCGcACU-CGGGUUUgGGCG- -5'
11878 3' -54.7 NC_003266.2 + 21224 0.7 0.390603
Target:  5'- -aGCAUugGC-UG-GCCUucgccugGAACCCGCg -3'
miRNA:   3'- caCGUAugCGcACuCGGG-------UUUGGGCG- -5'
11878 3' -54.7 NC_003266.2 + 19861 0.71 0.346386
Target:  5'- -aGCAUGgaGCG-GuAGCgCAAGCCCGCa -3'
miRNA:   3'- caCGUAUg-CGCaC-UCGgGUUUGGGCG- -5'
11878 3' -54.7 NC_003266.2 + 15951 0.72 0.274841
Target:  5'- -gGUGUGCGCGU--GCCCGuggcACCCGCc -3'
miRNA:   3'- caCGUAUGCGCAcuCGGGUu---UGGGCG- -5'
11878 3' -54.7 NC_003266.2 + 13430 0.74 0.204042
Target:  5'- -cGCGgGCGCGUGAuccuGCCC-AGCUCGCu -3'
miRNA:   3'- caCGUaUGCGCACU----CGGGuUUGGGCG- -5'
11878 3' -54.7 NC_003266.2 + 9780 1.13 0.000331
Target:  5'- cGUGCAUACGCGUGAGCCCAAACCCGCg -3'
miRNA:   3'- -CACGUAUGCGCACUCGGGUUUGGGCG- -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.