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
19694 3' -51.6 NC_004686.1 + 39619 0.66 0.928523
Target:  5'- aCCGGcgaCAUCGCCaaagaaGUCGGAugcUCCGa -3'
miRNA:   3'- -GGCCaa-GUAGCGGcag---UAGCUU---AGGC- -5'
19694 3' -51.6 NC_004686.1 + 2883 0.66 0.928523
Target:  5'- cCCGuucgCGUgGCCG-CAUCGAAUCgGu -3'
miRNA:   3'- -GGCcaa-GUAgCGGCaGUAGCUUAGgC- -5'
19694 3' -51.6 NC_004686.1 + 17673 0.66 0.922724
Target:  5'- gCGGUgacgauggCGUCucgGUCGUUGUCGAcUCCGg -3'
miRNA:   3'- gGCCAa-------GUAG---CGGCAGUAGCUuAGGC- -5'
19694 3' -51.6 NC_004686.1 + 18346 0.66 0.922724
Target:  5'- uCCGGUgUUAggGCCGUCGUCccg-CCGc -3'
miRNA:   3'- -GGCCA-AGUagCGGCAGUAGcuuaGGC- -5'
19694 3' -51.6 NC_004686.1 + 36385 0.66 0.922724
Target:  5'- gCCGGacUUCGUCGUCGUCcaUGA--CCGg -3'
miRNA:   3'- -GGCC--AAGUAGCGGCAGuaGCUuaGGC- -5'
19694 3' -51.6 NC_004686.1 + 29351 0.66 0.922724
Target:  5'- cCCaGGUUCA-CGCCaaCAUCGAGUgCu -3'
miRNA:   3'- -GG-CCAAGUaGCGGcaGUAGCUUAgGc -5'
19694 3' -51.6 NC_004686.1 + 14627 0.66 0.919111
Target:  5'- cCCGcacCGUCGCCGaguucgccgacgacuUCAUCGAuUCCa -3'
miRNA:   3'- -GGCcaaGUAGCGGC---------------AGUAGCUuAGGc -5'
19694 3' -51.6 NC_004686.1 + 28544 0.66 0.916648
Target:  5'- aCCGGUgcacgaUgAUUGCUugGUUGUUGAAUCCGc -3'
miRNA:   3'- -GGCCA------AgUAGCGG--CAGUAGCUUAGGC- -5'
19694 3' -51.6 NC_004686.1 + 40442 0.66 0.916647
Target:  5'- gCCGua--GUCGCCGaUCAUCG--UCCGg -3'
miRNA:   3'- -GGCcaagUAGCGGC-AGUAGCuuAGGC- -5'
19694 3' -51.6 NC_004686.1 + 31913 0.67 0.896765
Target:  5'- gCCGGUUC--CGUgGUUGUCGcacAUCCGg -3'
miRNA:   3'- -GGCCAAGuaGCGgCAGUAGCu--UAGGC- -5'
19694 3' -51.6 NC_004686.1 + 38403 0.67 0.889597
Target:  5'- gCCGcugcUCAUCGCCGcgggcaUCAUCGGccCCGg -3'
miRNA:   3'- -GGCca--AGUAGCGGC------AGUAGCUuaGGC- -5'
19694 3' -51.6 NC_004686.1 + 2803 0.68 0.866532
Target:  5'- aCCGGUgguggUGUCGaCCGUUccggugcCGGAUCCGg -3'
miRNA:   3'- -GGCCAa----GUAGC-GGCAGua-----GCUUAGGC- -5'
19694 3' -51.6 NC_004686.1 + 36348 0.68 0.866532
Target:  5'- uCUGG-UCGaucugCGCCGUCAaagaCGGAUCCa -3'
miRNA:   3'- -GGCCaAGUa----GCGGCAGUa---GCUUAGGc -5'
19694 3' -51.6 NC_004686.1 + 31788 0.68 0.849918
Target:  5'- aCGGUcuUCAU-GCCGUCGUCG-GUCa- -3'
miRNA:   3'- gGCCA--AGUAgCGGCAGUAGCuUAGgc -5'
19694 3' -51.6 NC_004686.1 + 7862 0.68 0.849918
Target:  5'- cCCGGUUCgAUC-CCcUCG-CGAGUCCa -3'
miRNA:   3'- -GGCCAAG-UAGcGGcAGUaGCUUAGGc -5'
19694 3' -51.6 NC_004686.1 + 343 0.68 0.841262
Target:  5'- -aGGUUCGUcCGUCGUaugUGAAUCCa -3'
miRNA:   3'- ggCCAAGUA-GCGGCAguaGCUUAGGc -5'
19694 3' -51.6 NC_004686.1 + 49699 0.68 0.832385
Target:  5'- aUCGGUUCGUCGCgaccguaGUCGUCcucaCCGg -3'
miRNA:   3'- -GGCCAAGUAGCGg------CAGUAGcuuaGGC- -5'
19694 3' -51.6 NC_004686.1 + 35308 0.68 0.823297
Target:  5'- aCGuGUauUCcuUCGUCGgCAUCGAAUCCGg -3'
miRNA:   3'- gGC-CA--AGu-AGCGGCaGUAGCUUAGGC- -5'
19694 3' -51.6 NC_004686.1 + 6888 0.69 0.785022
Target:  5'- uUCGcUUCGUCGCaCGUCGguccgUCGggUUCGg -3'
miRNA:   3'- -GGCcAAGUAGCG-GCAGU-----AGCuuAGGC- -5'
19694 3' -51.6 NC_004686.1 + 23744 0.69 0.770986
Target:  5'- ----aUCGUCGCCGUCAUCGGGcgcaagaaacuugCCGa -3'
miRNA:   3'- ggccaAGUAGCGGCAGUAGCUUa------------GGC- -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.