miRNA display CGI


Results 1 - 20 of 24 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
11609 5' -55.9 NC_003085.1 + 36915 0.66 0.646268
Target:  5'- cGGCCAG---CGGCGCGggUGGCa-- -3'
miRNA:   3'- cUCGGUCucaGUCGUGCuuGCCGagu -5'
11609 5' -55.9 NC_003085.1 + 48285 0.66 0.601616
Target:  5'- -cGCgCAGAG-CAGCGC-GugGGCUCc -3'
miRNA:   3'- cuCG-GUCUCaGUCGUGcUugCCGAGu -5'
11609 5' -55.9 NC_003085.1 + 21946 0.66 0.590496
Target:  5'- -cGCCAGcuUCAGCAggGggUGGCUCc -3'
miRNA:   3'- cuCGGUCucAGUCGUg-CuuGCCGAGu -5'
11609 5' -55.9 NC_003085.1 + 10936 0.66 0.589386
Target:  5'- -uGCCGGGGUUGguguugcGCAUGAAUGcGCUCGu -3'
miRNA:   3'- cuCGGUCUCAGU-------CGUGCUUGC-CGAGU- -5'
11609 5' -55.9 NC_003085.1 + 20344 0.67 0.579413
Target:  5'- uGGGCCAcGGcgccUCAGCGCGGgaGCGGC-CGg -3'
miRNA:   3'- -CUCGGUcUC----AGUCGUGCU--UGCCGaGU- -5'
11609 5' -55.9 NC_003085.1 + 26575 0.67 0.568374
Target:  5'- -cGCCGGAGUC-GCACca--GGCUCc -3'
miRNA:   3'- cuCGGUCUCAGuCGUGcuugCCGAGu -5'
11609 5' -55.9 NC_003085.1 + 33258 0.67 0.546464
Target:  5'- gGAGCaCGgcGAGg-AGCGCGGucACGGCUCAc -3'
miRNA:   3'- -CUCG-GU--CUCagUCGUGCU--UGCCGAGU- -5'
11609 5' -55.9 NC_003085.1 + 4084 0.67 0.53561
Target:  5'- cGAGCCAGAaguucuggGUgGGC-CGGGCGGUcCAg -3'
miRNA:   3'- -CUCGGUCU--------CAgUCGuGCUUGCCGaGU- -5'
11609 5' -55.9 NC_003085.1 + 34443 0.68 0.502477
Target:  5'- gGAGCCGGcgacgucGGcCAGCAUGAGCGuCUCu -3'
miRNA:   3'- -CUCGGUC-------UCaGUCGUGCUUGCcGAGu -5'
11609 5' -55.9 NC_003085.1 + 43773 0.68 0.493023
Target:  5'- -cGCCaucgAGGGUCAGCAuccCGAAUGGC-CGg -3'
miRNA:   3'- cuCGG----UCUCAGUCGU---GCUUGCCGaGU- -5'
11609 5' -55.9 NC_003085.1 + 43745 0.68 0.482616
Target:  5'- cGAGCCGGguccgccccgguGGUgGGCGCGGGCuuGGaCUCAa -3'
miRNA:   3'- -CUCGGUC------------UCAgUCGUGCUUG--CC-GAGU- -5'
11609 5' -55.9 NC_003085.1 + 5208 0.68 0.472317
Target:  5'- aGGCC-GAGUCcgAGCGCGAcGCGGCcCGg -3'
miRNA:   3'- cUCGGuCUCAG--UCGUGCU-UGCCGaGU- -5'
11609 5' -55.9 NC_003085.1 + 9088 0.68 0.472317
Target:  5'- -cGCCAGAggcGUCAGCgccGCGGgcagcaGCGGCUUg -3'
miRNA:   3'- cuCGGUCU---CAGUCG---UGCU------UGCCGAGu -5'
11609 5' -55.9 NC_003085.1 + 6318 0.69 0.462129
Target:  5'- cGAGCgGGAaccgcgCAGCAUGGGCGcGCUCu -3'
miRNA:   3'- -CUCGgUCUca----GUCGUGCUUGC-CGAGu -5'
11609 5' -55.9 NC_003085.1 + 358 0.69 0.442109
Target:  5'- gGGGCCcc-GUCAGCACGAGgGGCc-- -3'
miRNA:   3'- -CUCGGucuCAGUCGUGCUUgCCGagu -5'
11609 5' -55.9 NC_003085.1 + 8825 0.7 0.394302
Target:  5'- cAGCCAGcGUCAGgGCGAcgaggACGGCa-- -3'
miRNA:   3'- cUCGGUCuCAGUCgUGCU-----UGCCGagu -5'
11609 5' -55.9 NC_003085.1 + 36507 0.7 0.394302
Target:  5'- -uGCCGGGGccuuccggacgCGGCGCGGACGGUccUCAg -3'
miRNA:   3'- cuCGGUCUCa----------GUCGUGCUUGCCG--AGU- -5'
11609 5' -55.9 NC_003085.1 + 31098 0.7 0.394302
Target:  5'- cGGGCCAua---AGCgGCGAGCGGCUCAa -3'
miRNA:   3'- -CUCGGUcucagUCG-UGCUUGCCGAGU- -5'
11609 5' -55.9 NC_003085.1 + 46271 0.7 0.367272
Target:  5'- cGGGCCAGGGcCcGCGagaGGACGGCUa- -3'
miRNA:   3'- -CUCGGUCUCaGuCGUg--CUUGCCGAgu -5'
11609 5' -55.9 NC_003085.1 + 28221 0.71 0.349973
Target:  5'- -cGCCAGuGUCGGcCAUGggUGGCggCAg -3'
miRNA:   3'- cuCGGUCuCAGUC-GUGCuuGCCGa-GU- -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.