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
13308 3' -49.3 NC_003409.1 + 57548 0.66 0.99612
Target:  5'- aAGCcauGCgCAgcGCAGGCAUGCUGg -3'
miRNA:   3'- cUCGcu-CGaGUuuCGUUUGUACGACg -5'
13308 3' -49.3 NC_003409.1 + 102773 0.66 0.99612
Target:  5'- aGGGUGGGCgguggugUGGAGgAGAUAUGUUGUg -3'
miRNA:   3'- -CUCGCUCGa------GUUUCgUUUGUACGACG- -5'
13308 3' -49.3 NC_003409.1 + 120291 0.66 0.995431
Target:  5'- cGGUGGcGCUCAAcGCcAAUAUGCgcgGCu -3'
miRNA:   3'- cUCGCU-CGAGUUuCGuUUGUACGa--CG- -5'
13308 3' -49.3 NC_003409.1 + 134195 0.66 0.995431
Target:  5'- aGGCGGucuguGC-CAcggggGAGCGAGCGUGUUGUa -3'
miRNA:   3'- cUCGCU-----CGaGU-----UUCGUUUGUACGACG- -5'
13308 3' -49.3 NC_003409.1 + 116737 0.66 0.993753
Target:  5'- uGGGCGAugcGCUCAAAaaaaauaaCGAGCAUGCUcgguaGCg -3'
miRNA:   3'- -CUCGCU---CGAGUUUc-------GUUUGUACGA-----CG- -5'
13308 3' -49.3 NC_003409.1 + 58722 0.66 0.992746
Target:  5'- uGGC-AGCUUgguGAAGCAGACgAUGCUuuGCg -3'
miRNA:   3'- cUCGcUCGAG---UUUCGUUUG-UACGA--CG- -5'
13308 3' -49.3 NC_003409.1 + 71731 0.66 0.992746
Target:  5'- cGGGCGGuGCUUuucaggAGAGUuagGGACGUGCUGa -3'
miRNA:   3'- -CUCGCU-CGAG------UUUCG---UUUGUACGACg -5'
13308 3' -49.3 NC_003409.1 + 20920 0.67 0.991613
Target:  5'- aAGCGGGUguuuuggCGAGGCGuaguGCAagaGCUGCu -3'
miRNA:   3'- cUCGCUCGa------GUUUCGUu---UGUa--CGACG- -5'
13308 3' -49.3 NC_003409.1 + 127258 0.67 0.990344
Target:  5'- aGGGgGAGCUCucagacaauuAAGCGguuacacacaguAGCAgGCUGCa -3'
miRNA:   3'- -CUCgCUCGAGu---------UUCGU------------UUGUaCGACG- -5'
13308 3' -49.3 NC_003409.1 + 108089 0.67 0.98736
Target:  5'- cGGGCGGacuucgagucGCUCgAGAGCG-ACAUGC-GCg -3'
miRNA:   3'- -CUCGCU----------CGAG-UUUCGUuUGUACGaCG- -5'
13308 3' -49.3 NC_003409.1 + 88200 0.67 0.98736
Target:  5'- uGGCGc-CUUAGGGgGAGCAggUGCUGCa -3'
miRNA:   3'- cUCGCucGAGUUUCgUUUGU--ACGACG- -5'
13308 3' -49.3 NC_003409.1 + 8909 0.67 0.986856
Target:  5'- cGGgGAGCUUuuucgguucaaccuGGAGCAGACGUGCc-- -3'
miRNA:   3'- cUCgCUCGAG--------------UUUCGUUUGUACGacg -5'
13308 3' -49.3 NC_003409.1 + 40976 0.67 0.985623
Target:  5'- uGGGCGccAGCUCGuGGCGAaucuguuccACAagagGCUGCc -3'
miRNA:   3'- -CUCGC--UCGAGUuUCGUU---------UGUa---CGACG- -5'
13308 3' -49.3 NC_003409.1 + 41679 0.68 0.983709
Target:  5'- uGGGC-AGCUCuacaguGuCAGACAUGCUGg -3'
miRNA:   3'- -CUCGcUCGAGuuu---C-GUUUGUACGACg -5'
13308 3' -49.3 NC_003409.1 + 65776 0.68 0.979311
Target:  5'- aGGUGAGCacauuaUCAcAGGCAGAUAucucguuucucUGCUGCg -3'
miRNA:   3'- cUCGCUCG------AGU-UUCGUUUGU-----------ACGACG- -5'
13308 3' -49.3 NC_003409.1 + 66727 0.68 0.976807
Target:  5'- cGGCGuGC-CAGGGCcAGCcUGUUGCa -3'
miRNA:   3'- cUCGCuCGaGUUUCGuUUGuACGACG- -5'
13308 3' -49.3 NC_003409.1 + 107974 0.68 0.976807
Target:  5'- cAGgGAGCUCcaGGGGCGugcccaccguGGCcUGCUGCa -3'
miRNA:   3'- cUCgCUCGAG--UUUCGU----------UUGuACGACG- -5'
13308 3' -49.3 NC_003409.1 + 131631 0.68 0.976807
Target:  5'- cGAGCGGGUUaggguGGGCGggUAgugagaGCUGCa -3'
miRNA:   3'- -CUCGCUCGAgu---UUCGUuuGUa-----CGACG- -5'
13308 3' -49.3 NC_003409.1 + 110851 0.68 0.974087
Target:  5'- gGAGCccaaagGGGUUCuccAAAGCAAACguggaacucucGUGCUGCg -3'
miRNA:   3'- -CUCG------CUCGAG---UUUCGUUUG-----------UACGACG- -5'
13308 3' -49.3 NC_003409.1 + 24740 0.69 0.971143
Target:  5'- gGAGgGGGCgcgcCGGGGCuccuGGgGUGCUGCc -3'
miRNA:   3'- -CUCgCUCGa---GUUUCGu---UUgUACGACG- -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.