miRNA display CGI


Results 1 - 20 of 35 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
19120 3' -56.4 NC_004684.1 + 36 1.11 0.000864
Target:  5'- cGGUACCAGGGGUCCCCGAAAACCGGAu -3'
miRNA:   3'- -CCAUGGUCCCCAGGGGCUUUUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 63896 0.75 0.270841
Target:  5'- cGGUGCCAGGuGGUCCa-GGu-ACCGGGu -3'
miRNA:   3'- -CCAUGGUCC-CCAGGggCUuuUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 39735 0.74 0.319987
Target:  5'- --cACCAGGGuGUCCaCCGuggucauGAGACCGGGu -3'
miRNA:   3'- ccaUGGUCCC-CAGG-GGC-------UUUUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 20762 0.71 0.449479
Target:  5'- cGGUGCCguccacaccggAGGcGGUggCCCCGAAGccACCGGc -3'
miRNA:   3'- -CCAUGG-----------UCC-CCA--GGGGCUUU--UGGCCu -5'
19120 3' -56.4 NC_004684.1 + 35363 0.7 0.475537
Target:  5'- cGGUGCCAgcuguGGGcGUUCCCGcAAcagggcaaccugguGGCCGGAu -3'
miRNA:   3'- -CCAUGGU-----CCC-CAGGGGC-UU--------------UUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 37587 0.7 0.508369
Target:  5'- --cACCAGGGuGUCCCgGuagguGCCGGu -3'
miRNA:   3'- ccaUGGUCCC-CAGGGgCuuu--UGGCCu -5'
19120 3' -56.4 NC_004684.1 + 65445 0.7 0.508369
Target:  5'- aGUACCAGGGGagaaCGAAAACCGa- -3'
miRNA:   3'- cCAUGGUCCCCagggGCUUUUGGCcu -5'
19120 3' -56.4 NC_004684.1 + 52425 0.7 0.508369
Target:  5'- cGGUccagGCCGGGGGUCUcgaugucggCCGcc-ACCGGGa -3'
miRNA:   3'- -CCA----UGGUCCCCAGG---------GGCuuuUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 51306 0.7 0.508369
Target:  5'- cGGUGCCAGGaacUCCCGGucACCGGc -3'
miRNA:   3'- -CCAUGGUCCccaGGGGCUuuUGGCCu -5'
19120 3' -56.4 NC_004684.1 + 5312 0.7 0.518508
Target:  5'- uGUACCAGGGuUCCCCGAcGAAUCc-- -3'
miRNA:   3'- cCAUGGUCCCcAGGGGCU-UUUGGccu -5'
19120 3' -56.4 NC_004684.1 + 2853 0.69 0.539019
Target:  5'- uGG-ACCAcGGGUUCCUGGucgcGCCGGAc -3'
miRNA:   3'- -CCaUGGUcCCCAGGGGCUuu--UGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 65469 0.69 0.559799
Target:  5'- cGGUACCAGG----CCCGGcAGGCCGGGu -3'
miRNA:   3'- -CCAUGGUCCccagGGGCU-UUUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 37161 0.68 0.601951
Target:  5'- uGGUGgguUCGGGGGccgccUCCCCGAucACCauGGAc -3'
miRNA:   3'- -CCAU---GGUCCCC-----AGGGGCUuuUGG--CCU- -5'
19120 3' -56.4 NC_004684.1 + 14207 0.68 0.601951
Target:  5'- --gGCCAGcGGcgcggucggccuGUCCCCGGAGgccuucacGCCGGAc -3'
miRNA:   3'- ccaUGGUC-CC------------CAGGGGCUUU--------UGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 32889 0.68 0.611507
Target:  5'- uGGUACaccgcccaauuuuCGGGGGugUCCUCGGcgguGCCGGAc -3'
miRNA:   3'- -CCAUG-------------GUCCCC--AGGGGCUuu--UGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 11819 0.68 0.623203
Target:  5'- uGGUGCCuGGac-CCCCGGccACCGGGc -3'
miRNA:   3'- -CCAUGGuCCccaGGGGCUuuUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 15922 0.68 0.633844
Target:  5'- aGGUcGCCAuccuGGGGgCCUCGGccACCGGGc -3'
miRNA:   3'- -CCA-UGGU----CCCCaGGGGCUuuUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 62786 0.67 0.665723
Target:  5'- uGGUGCCugcccggcGGGGUUgCCGGgcAGGCgGGGg -3'
miRNA:   3'- -CCAUGGu-------CCCCAGgGGCU--UUUGgCCU- -5'
19120 3' -56.4 NC_004684.1 + 38815 0.67 0.665723
Target:  5'- cGGUGCCcgccuGGcGGUgCCCGAcgGCCuGGu -3'
miRNA:   3'- -CCAUGGu----CC-CCAgGGGCUuuUGG-CCu -5'
19120 3' -56.4 NC_004684.1 + 60362 0.67 0.686844
Target:  5'- cGGUGCCAGGucGGUCaggUUGGGcauGCCGGGg -3'
miRNA:   3'- -CCAUGGUCC--CCAGg--GGCUUu--UGGCCU- -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.