miRNA display CGI


Results 1 - 20 of 49 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
5898 3' -56.8 NC_001806.1 + 25941 0.76 0.357119
Target:  5'- cGGGCGugGGGGCggGGCCGCGggagCGGGg -3'
miRNA:   3'- -UCCGCugCCUCGagCUGGUGCa---GUUU- -5'
5898 3' -56.8 NC_001806.1 + 18461 0.72 0.517618
Target:  5'- cGGGCGuuccACGGAGCugguaUCGGCCACGaccgCAGAc -3'
miRNA:   3'- -UCCGC----UGCCUCG-----AGCUGGUGCa---GUUU- -5'
5898 3' -56.8 NC_001806.1 + 2612 0.72 0.537329
Target:  5'- cGGGUGGucCGuGAGCUCGGCCACGgcgcgCGGGg -3'
miRNA:   3'- -UCCGCU--GC-CUCGAGCUGGUGCa----GUUU- -5'
5898 3' -56.8 NC_001806.1 + 127903 0.72 0.567356
Target:  5'- cGGGUGcaGCGGAGCaCGGCCAUGcCGAGg -3'
miRNA:   3'- -UCCGC--UGCCUCGaGCUGGUGCaGUUU- -5'
5898 3' -56.8 NC_001806.1 + 85744 0.71 0.607994
Target:  5'- -uGCGGucCGGAGCcgcgCGGCCACGUCGu- -3'
miRNA:   3'- ucCGCU--GCCUCGa---GCUGGUGCAGUuu -5'
5898 3' -56.8 NC_001806.1 + 35512 0.71 0.618217
Target:  5'- gAGGCGuCGGAGCggGGCCGC-UCAc- -3'
miRNA:   3'- -UCCGCuGCCUCGagCUGGUGcAGUuu -5'
5898 3' -56.8 NC_001806.1 + 3099 0.7 0.62845
Target:  5'- cGGCGgccGCGGAGCUCGGCagGCG-CGGGu -3'
miRNA:   3'- uCCGC---UGCCUCGAGCUGg-UGCaGUUU- -5'
5898 3' -56.8 NC_001806.1 + 3633 0.7 0.659134
Target:  5'- cGGCGGCGGcgacGGCggCGACCcccuCGUCAu- -3'
miRNA:   3'- uCCGCUGCC----UCGa-GCUGGu---GCAGUuu -5'
5898 3' -56.8 NC_001806.1 + 27290 0.7 0.659134
Target:  5'- cAGcGCGGCGGGGCcCGGCCaaccaGCGUCc-- -3'
miRNA:   3'- -UC-CGCUGCCUCGaGCUGG-----UGCAGuuu -5'
5898 3' -56.8 NC_001806.1 + 81970 0.7 0.659134
Target:  5'- cGGCGACGGGuaauagccuGCUCGGCgGCG-CGGc -3'
miRNA:   3'- uCCGCUGCCU---------CGAGCUGgUGCaGUUu -5'
5898 3' -56.8 NC_001806.1 + 95076 0.7 0.659134
Target:  5'- cGGCgGGCGGAGCauuUCGAUCGCGcguUCGGGa -3'
miRNA:   3'- uCCG-CUGCCUCG---AGCUGGUGC---AGUUU- -5'
5898 3' -56.8 NC_001806.1 + 98639 0.7 0.659134
Target:  5'- uGGGCGGCGuGGuaUCGGCCGUGUCGGg -3'
miRNA:   3'- -UCCGCUGC-CUcgAGCUGGUGCAGUUu -5'
5898 3' -56.8 NC_001806.1 + 151452 0.7 0.66933
Target:  5'- cGGCGGCGGGGC--GGCCGCGg---- -3'
miRNA:   3'- uCCGCUGCCUCGagCUGGUGCaguuu -5'
5898 3' -56.8 NC_001806.1 + 120339 0.69 0.688611
Target:  5'- gGGGCGGCGGGucgucccGCUCGGCgACGa---- -3'
miRNA:   3'- -UCCGCUGCCU-------CGAGCUGgUGCaguuu -5'
5898 3' -56.8 NC_001806.1 + 2996 0.69 0.689622
Target:  5'- gAGGCGGCGGcGGCcgccagcgcgUCGGCgGCGUCc-- -3'
miRNA:   3'- -UCCGCUGCC-UCG----------AGCUGgUGCAGuuu -5'
5898 3' -56.8 NC_001806.1 + 86068 0.69 0.698695
Target:  5'- gGGGCGGCGGcgucuAGCUCGcggagggcggccaGCCGCG-CGAc -3'
miRNA:   3'- -UCCGCUGCC-----UCGAGC-------------UGGUGCaGUUu -5'
5898 3' -56.8 NC_001806.1 + 37810 0.69 0.699701
Target:  5'- cGGGCGGgGGGGCaaUCG-CCAgCGUCAu- -3'
miRNA:   3'- -UCCGCUgCCUCG--AGCuGGU-GCAGUuu -5'
5898 3' -56.8 NC_001806.1 + 24899 0.69 0.709723
Target:  5'- gGGGCGgagGCGG-GCUUGGCCACGcCc-- -3'
miRNA:   3'- -UCCGC---UGCCuCGAGCUGGUGCaGuuu -5'
5898 3' -56.8 NC_001806.1 + 11540 0.69 0.719679
Target:  5'- cGGGCGACgGGAGCgUCGguaGCgGCGUUGAc -3'
miRNA:   3'- -UCCGCUG-CCUCG-AGC---UGgUGCAGUUu -5'
5898 3' -56.8 NC_001806.1 + 3672 0.69 0.72956
Target:  5'- cGGCGcCGGGGCUCcccgcGGCCccCGUCAGc -3'
miRNA:   3'- uCCGCuGCCUCGAG-----CUGGu-GCAGUUu -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.