miRNA display CGI


Results 1 - 20 of 21 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
17107 3' -56.2 NC_004333.2 + 21212 0.66 0.585976
Target:  5'- ---aUCACGUCa-AGUUGCGCGCGc- -3'
miRNA:   3'- uucaAGUGCAGcgUCAGCGCGCGCuu -5'
17107 3' -56.2 NC_004333.2 + 44636 0.67 0.530953
Target:  5'- ---aUCGCGUCGguGUCGaucaGUGCGu- -3'
miRNA:   3'- uucaAGUGCAGCguCAGCg---CGCGCuu -5'
17107 3' -56.2 NC_004333.2 + 26320 0.67 0.520159
Target:  5'- -cGUUCAgCGaaGCAGUCGCGUggaugaGCGAAc -3'
miRNA:   3'- uuCAAGU-GCagCGUCAGCGCG------CGCUU- -5'
17107 3' -56.2 NC_004333.2 + 31091 0.67 0.508386
Target:  5'- cAGGUUCGgcgccuggccCGUCaGCGGcgcgaguugcugcUCGCGCGCGAGc -3'
miRNA:   3'- -UUCAAGU----------GCAG-CGUC-------------AGCGCGCGCUU- -5'
17107 3' -56.2 NC_004333.2 + 2892 0.67 0.488325
Target:  5'- --aUUCACGUCGCcggauuucguGGUCGCGUaCGAu -3'
miRNA:   3'- uucAAGUGCAGCG----------UCAGCGCGcGCUu -5'
17107 3' -56.2 NC_004333.2 + 39712 0.68 0.467619
Target:  5'- gAAGUUCGCGUCcggcaGCAGUCGgcCGCuaGGAu -3'
miRNA:   3'- -UUCAAGUGCAG-----CGUCAGC--GCGcgCUU- -5'
17107 3' -56.2 NC_004333.2 + 45728 0.68 0.467619
Target:  5'- uAGGUgCAUG-CGCAGcgCGCGCGCGu- -3'
miRNA:   3'- -UUCAaGUGCaGCGUCa-GCGCGCGCuu -5'
17107 3' -56.2 NC_004333.2 + 14056 0.68 0.467619
Target:  5'- aAAGaagCGCG-CGCAGcUCGCGCGCa-- -3'
miRNA:   3'- -UUCaa-GUGCaGCGUC-AGCGCGCGcuu -5'
17107 3' -56.2 NC_004333.2 + 28999 0.68 0.467619
Target:  5'- cGGGUcgGCGUgCGCA-UCGCGCGCGGc -3'
miRNA:   3'- -UUCAagUGCA-GCGUcAGCGCGCGCUu -5'
17107 3' -56.2 NC_004333.2 + 19559 0.68 0.437436
Target:  5'- cGGUcgCACGgucggCGCGGcacaaggggaaUCGCGCGCGAu -3'
miRNA:   3'- uUCAa-GUGCa----GCGUC-----------AGCGCGCGCUu -5'
17107 3' -56.2 NC_004333.2 + 25274 0.69 0.417947
Target:  5'- cGGgcgUCgACGUCG-AGUCGCGCaGCGAGu -3'
miRNA:   3'- uUCa--AG-UGCAGCgUCAGCGCG-CGCUU- -5'
17107 3' -56.2 NC_004333.2 + 11307 0.69 0.417947
Target:  5'- -uGcgC-CGUCGCcuuguugcacuGGUCGCGCGCGAu -3'
miRNA:   3'- uuCaaGuGCAGCG-----------UCAGCGCGCGCUu -5'
17107 3' -56.2 NC_004333.2 + 25768 0.69 0.408403
Target:  5'- cGGgacgUugGUCGUGGUCauGCGCGCGAu -3'
miRNA:   3'- uUCaa--GugCAGCGUCAG--CGCGCGCUu -5'
17107 3' -56.2 NC_004333.2 + 30501 0.69 0.389729
Target:  5'- -cGUggCGCGagGCAGUCgcuacgGCGCGCGAAu -3'
miRNA:   3'- uuCAa-GUGCagCGUCAG------CGCGCGCUU- -5'
17107 3' -56.2 NC_004333.2 + 33484 0.7 0.371623
Target:  5'- cGGUUCgGCG-CGCAGUCGCuGCGCc-- -3'
miRNA:   3'- uUCAAG-UGCaGCGUCAGCG-CGCGcuu -5'
17107 3' -56.2 NC_004333.2 + 1199 0.7 0.370733
Target:  5'- ---gUCGCG-CGCAGcacggcaccgacuUCGCGCGCGAc -3'
miRNA:   3'- uucaAGUGCaGCGUC-------------AGCGCGCGCUu -5'
17107 3' -56.2 NC_004333.2 + 11278 0.7 0.362787
Target:  5'- cGAGUUCGCGUUGC---CGCGCGCu-- -3'
miRNA:   3'- -UUCAAGUGCAGCGucaGCGCGCGcuu -5'
17107 3' -56.2 NC_004333.2 + 47711 0.7 0.345558
Target:  5'- -cGUUCACGcUCGCcggcacGUCGCGCGCc-- -3'
miRNA:   3'- uuCAAGUGC-AGCGu-----CAGCGCGCGcuu -5'
17107 3' -56.2 NC_004333.2 + 3087 0.71 0.289958
Target:  5'- gAAGUUCGCG-CGCuacGUCGCG-GCGGAc -3'
miRNA:   3'- -UUCAAGUGCaGCGu--CAGCGCgCGCUU- -5'
17107 3' -56.2 NC_004333.2 + 19661 0.8 0.076103
Target:  5'- -uGUUCGCGUCGUuGaUCGCGCGCGAu -3'
miRNA:   3'- uuCAAGUGCAGCGuC-AGCGCGCGCUu -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.