miRNA display CGI


Results 1 - 20 of 27 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
20622 5' -54.6 NC_004688.1 + 66666 0.66 0.90407
Target:  5'- uGCCCGGCGCGGAcugGCCACccaguUCGu -3'
miRNA:   3'- uCGGGUUGCGUCU---UGGUGcuccuAGU- -5'
20622 5' -54.6 NC_004688.1 + 99836 0.66 0.897462
Target:  5'- aGGCCCAacgACGCGGGugcAUCACGAuGAccUCGg -3'
miRNA:   3'- -UCGGGU---UGCGUCU---UGGUGCUcCU--AGU- -5'
20622 5' -54.6 NC_004688.1 + 49656 0.66 0.883507
Target:  5'- gGGCgUcGCGguGGAUCugGuGGAUCGg -3'
miRNA:   3'- -UCGgGuUGCguCUUGGugCuCCUAGU- -5'
20622 5' -54.6 NC_004688.1 + 49082 0.66 0.876168
Target:  5'- cGGCCguagugcaCGACGCAGaAGCCGCGAGcGUg- -3'
miRNA:   3'- -UCGG--------GUUGCGUC-UUGGUGCUCcUAgu -5'
20622 5' -54.6 NC_004688.1 + 56770 0.66 0.876168
Target:  5'- gGGCCC--CGCAGuagcCCAgGAGGAgcgUCAg -3'
miRNA:   3'- -UCGGGuuGCGUCuu--GGUgCUCCU---AGU- -5'
20622 5' -54.6 NC_004688.1 + 104891 0.67 0.868596
Target:  5'- cGCCCGG-GUuGGGCCcguCGAGGAUCu -3'
miRNA:   3'- uCGGGUUgCGuCUUGGu--GCUCCUAGu -5'
20622 5' -54.6 NC_004688.1 + 30943 0.67 0.868596
Target:  5'- cGCCCcagAACGCAcGGGCaACGAGGAc-- -3'
miRNA:   3'- uCGGG---UUGCGU-CUUGgUGCUCCUagu -5'
20622 5' -54.6 NC_004688.1 + 99672 0.67 0.868596
Target:  5'- uGCCCAGCGUGGu-CgGC-AGGGUCGg -3'
miRNA:   3'- uCGGGUUGCGUCuuGgUGcUCCUAGU- -5'
20622 5' -54.6 NC_004688.1 + 105036 0.67 0.852772
Target:  5'- -aCCCAccACGUAGAGCCugGAGucguuGUCGa -3'
miRNA:   3'- ucGGGU--UGCGUCUUGGugCUCc----UAGU- -5'
20622 5' -54.6 NC_004688.1 + 93835 0.67 0.852772
Target:  5'- gGGCCCGAC-CAGGGCUuGCGuGGggCAu -3'
miRNA:   3'- -UCGGGUUGcGUCUUGG-UGCuCCuaGU- -5'
20622 5' -54.6 NC_004688.1 + 7890 0.67 0.851958
Target:  5'- aGGUCCGcacaaguaucgACGCGGAuuuaGCCGCcauccgcgccgccGAGGAUCGg -3'
miRNA:   3'- -UCGGGU-----------UGCGUCU----UGGUG-------------CUCCUAGU- -5'
20622 5' -54.6 NC_004688.1 + 50875 0.67 0.844535
Target:  5'- uGCCCAGC-CAGcucGGCC-CGAGGGUg- -3'
miRNA:   3'- uCGGGUUGcGUC---UUGGuGCUCCUAgu -5'
20622 5' -54.6 NC_004688.1 + 48912 0.67 0.844535
Target:  5'- -uCCCGACGUu--GCCGCGcGGGUCGu -3'
miRNA:   3'- ucGGGUUGCGucuUGGUGCuCCUAGU- -5'
20622 5' -54.6 NC_004688.1 + 11691 0.68 0.818614
Target:  5'- gAGCUCAACcCcGAGCCG-GAGGAUCu -3'
miRNA:   3'- -UCGGGUUGcGuCUUGGUgCUCCUAGu -5'
20622 5' -54.6 NC_004688.1 + 36928 0.68 0.818614
Target:  5'- cGCCCAGCcCucGGCCGCGAGGcguUCGg -3'
miRNA:   3'- uCGGGUUGcGucUUGGUGCUCCu--AGU- -5'
20622 5' -54.6 NC_004688.1 + 40367 0.68 0.791057
Target:  5'- cGUCCAGCGCccgguGAuacucCCACGGGGAggagCAg -3'
miRNA:   3'- uCGGGUUGCGu----CUu----GGUGCUCCUa---GU- -5'
20622 5' -54.6 NC_004688.1 + 105976 0.68 0.790113
Target:  5'- cGCCCAugGUGGuccacCCGCGcucggaaAGGAUCGg -3'
miRNA:   3'- uCGGGUugCGUCuu---GGUGC-------UCCUAGU- -5'
20622 5' -54.6 NC_004688.1 + 39830 0.69 0.771901
Target:  5'- uGCgCCAGCGCuuggggguGAGCgCGCGcAGGAUCu -3'
miRNA:   3'- uCG-GGUUGCGu-------CUUG-GUGC-UCCUAGu -5'
20622 5' -54.6 NC_004688.1 + 30192 0.69 0.741181
Target:  5'- cGCCCGAguucuggcauuuCGCAGGACCucagccugccuuuGCGGGGAcUCGc -3'
miRNA:   3'- uCGGGUU------------GCGUCUUGG-------------UGCUCCU-AGU- -5'
20622 5' -54.6 NC_004688.1 + 29841 0.7 0.711547
Target:  5'- uGCCCAcgagaggcuuGCGCGcGACCACGAuGGGcUCAa -3'
miRNA:   3'- uCGGGU----------UGCGUcUUGGUGCU-CCU-AGU- -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.