miRNA display CGI


Results 1 - 20 of 30 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
5639 3' -51.8 NC_001806.1 + 89807 1 0.026134
Target:  5'- gGCACGCCCCCAGG-AAAGUGUACAUAu -3'
miRNA:   3'- -CGUGCGGGGGUCCaUUUCACAUGUAU- -5'
5639 3' -51.8 NC_001806.1 + 34849 0.76 0.584295
Target:  5'- cCACGCCCCCAGcGUcgGGUGUcACGg- -3'
miRNA:   3'- cGUGCGGGGGUC-CAuuUCACA-UGUau -5'
5639 3' -51.8 NC_001806.1 + 28 0.73 0.752056
Target:  5'- cGCGCGaCCCCCGGGg--GGUGUGu--- -3'
miRNA:   3'- -CGUGC-GGGGGUCCauuUCACAUguau -5'
5639 3' -51.8 NC_001806.1 + 151738 0.73 0.752056
Target:  5'- cGCGCGaCCCCCGGGg--GGUGUGu--- -3'
miRNA:   3'- -CGUGC-GGGGGUCCauuUCACAUguau -5'
5639 3' -51.8 NC_001806.1 + 82217 0.72 0.800436
Target:  5'- uCGCGCCCCCGGGggcguuGUGUggGCGa- -3'
miRNA:   3'- cGUGCGGGGGUCCauuu--CACA--UGUau -5'
5639 3' -51.8 NC_001806.1 + 22070 0.72 0.809658
Target:  5'- gGCcccCGCCCCCGGGgcGGGUgcuGUACGg- -3'
miRNA:   3'- -CGu--GCGGGGGUCCauUUCA---CAUGUau -5'
5639 3' -51.8 NC_001806.1 + 66998 0.7 0.876436
Target:  5'- gGCGCGCCCCCAcccgcgucccgcGGUAGuuggccGUG-ACGUGg -3'
miRNA:   3'- -CGUGCGGGGGU------------CCAUUu-----CACaUGUAU- -5'
5639 3' -51.8 NC_001806.1 + 116963 0.7 0.883793
Target:  5'- cCugGCUCCCGuGGUucGGGUGUGCAc- -3'
miRNA:   3'- cGugCGGGGGU-CCAu-UUCACAUGUau -5'
5639 3' -51.8 NC_001806.1 + 80326 0.69 0.916875
Target:  5'- uGCGCGCCCCCGGGg-------GCAUu -3'
miRNA:   3'- -CGUGCGGGGGUCCauuucacaUGUAu -5'
5639 3' -51.8 NC_001806.1 + 48124 0.69 0.916875
Target:  5'- cCGCGCCUCUGGGUAcuuuauGGUGUugAUu -3'
miRNA:   3'- cGUGCGGGGGUCCAUu-----UCACAugUAu -5'
5639 3' -51.8 NC_001806.1 + 19920 0.69 0.922728
Target:  5'- gGUGCGUCCCCuguguuucguGGGUGGGGUGgGCGg- -3'
miRNA:   3'- -CGUGCGGGGG----------UCCAUUUCACaUGUau -5'
5639 3' -51.8 NC_001806.1 + 128060 0.69 0.93366
Target:  5'- cCACgGCCCCCAGGUGGGGg------- -3'
miRNA:   3'- cGUG-CGGGGGUCCAUUUCacauguau -5'
5639 3' -51.8 NC_001806.1 + 21369 0.68 0.952443
Target:  5'- uGCugGCCUCCAuGGUAGAGgagGCc-- -3'
miRNA:   3'- -CGugCGGGGGU-CCAUUUCacaUGuau -5'
5639 3' -51.8 NC_001806.1 + 123192 0.67 0.959964
Target:  5'- aGCAC-CCCCCGGGUcgcccgcAGGGUG-GCGg- -3'
miRNA:   3'- -CGUGcGGGGGUCCA-------UUUCACaUGUau -5'
5639 3' -51.8 NC_001806.1 + 104196 0.67 0.96287
Target:  5'- gGCGCGgUCCCAGGUccacuucgcauauuAAGGUGacGCGUGu -3'
miRNA:   3'- -CGUGCgGGGGUCCA--------------UUUCACa-UGUAU- -5'
5639 3' -51.8 NC_001806.1 + 30216 0.67 0.967273
Target:  5'- cGCGCGCCCCCGcgcGGccguGGccccGUGCGUGc -3'
miRNA:   3'- -CGUGCGGGGGU---CCauu-UCa---CAUGUAU- -5'
5639 3' -51.8 NC_001806.1 + 20658 0.67 0.969484
Target:  5'- aCGgGCCCCCGGcGUGccggcgucggggcgGGGUcGUGCAUAa -3'
miRNA:   3'- cGUgCGGGGGUC-CAU--------------UUCA-CAUGUAU- -5'
5639 3' -51.8 NC_001806.1 + 49973 0.67 0.970399
Target:  5'- gGCugGCCaucaaCGGGU-GGGUGUGCGg- -3'
miRNA:   3'- -CGugCGGgg---GUCCAuUUCACAUGUau -5'
5639 3' -51.8 NC_001806.1 + 138804 0.67 0.970399
Target:  5'- -gGCGCCCCCGGc--GAGcGUGCGUu -3'
miRNA:   3'- cgUGCGGGGGUCcauUUCaCAUGUAu -5'
5639 3' -51.8 NC_001806.1 + 117572 0.67 0.973024
Target:  5'- -gACGCCCCCGGaGUuaaacuuuuuaauAAAGUGUuCAa- -3'
miRNA:   3'- cgUGCGGGGGUC-CA-------------UUUCACAuGUau -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.