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
11457 5' -61.4 NC_003085.1 + 93 0.67 0.358287
Target:  5'- aGCCCGAGaAUGAGauggucaacacgaCCGCccGCUUCCCu -3'
miRNA:   3'- gUGGGCUC-UGCUC-------------GGCGc-CGAAGGGc -5'
11457 5' -61.4 NC_003085.1 + 2352 0.68 0.304944
Target:  5'- aCAUCCGGGaggcgcaguGCGAgGCCGCGGCgcgcgagcUCUCGc -3'
miRNA:   3'- -GUGGGCUC---------UGCU-CGGCGCCGa-------AGGGC- -5'
11457 5' -61.4 NC_003085.1 + 4718 0.7 0.232875
Target:  5'- --aCCGAaGCGAGCgCGgaacuCGGCUUCCCGu -3'
miRNA:   3'- gugGGCUcUGCUCG-GC-----GCCGAAGGGC- -5'
11457 5' -61.4 NC_003085.1 + 9087 0.66 0.410623
Target:  5'- gCGCCaGAGGCGucagcgccgcgGGCagcaGCGGCUUgCCCa -3'
miRNA:   3'- -GUGGgCUCUGC-----------UCGg---CGCCGAA-GGGc -5'
11457 5' -61.4 NC_003085.1 + 9899 0.7 0.205146
Target:  5'- gGCgCCGuAGuACGcAGCUGCGGCagUCCCGa -3'
miRNA:   3'- gUG-GGC-UC-UGC-UCGGCGCCGa-AGGGC- -5'
11457 5' -61.4 NC_003085.1 + 10818 0.68 0.304944
Target:  5'- cCACUgGAGGCG-GCaaaccccaGCGGCUugagcgUCCCGa -3'
miRNA:   3'- -GUGGgCUCUGCuCGg-------CGCCGA------AGGGC- -5'
11457 5' -61.4 NC_003085.1 + 11361 0.66 0.392945
Target:  5'- -cUCCGAGACGAugGUgGCGGCg--CCGg -3'
miRNA:   3'- guGGGCUCUGCU--CGgCGCCGaagGGC- -5'
11457 5' -61.4 NC_003085.1 + 18715 0.68 0.283726
Target:  5'- cCGCCugaCGAGACGGGaCGCGcCUUCCUGc -3'
miRNA:   3'- -GUGG---GCUCUGCUCgGCGCcGAAGGGC- -5'
11457 5' -61.4 NC_003085.1 + 18958 0.66 0.392945
Target:  5'- -cCCCGcGACG-GUgGCGcGCUUCCUGc -3'
miRNA:   3'- guGGGCuCUGCuCGgCGC-CGAAGGGC- -5'
11457 5' -61.4 NC_003085.1 + 19203 0.67 0.350972
Target:  5'- cCGCCUGGGGCG-GCgGgGGCUgggCgCCGc -3'
miRNA:   3'- -GUGGGCUCUGCuCGgCgCCGAa--G-GGC- -5'
11457 5' -61.4 NC_003085.1 + 21563 0.66 0.375769
Target:  5'- gGCCCGcgagggccauGACGAGuuGCucggugGGCUgCCCGg -3'
miRNA:   3'- gUGGGCu---------CUGCUCggCG------CCGAaGGGC- -5'
11457 5' -61.4 NC_003085.1 + 22394 0.67 0.325064
Target:  5'- -cCCCGAGACGGGgCGCgucgaguccaucgaGGUgacCCCGg -3'
miRNA:   3'- guGGGCUCUGCUCgGCG--------------CCGaa-GGGC- -5'
11457 5' -61.4 NC_003085.1 + 24051 0.74 0.108749
Target:  5'- uCGCCCGccuGGCGAagcgcgggaaGCCGCGGCUcgUCUCGg -3'
miRNA:   3'- -GUGGGCu--CUGCU----------CGGCGCCGA--AGGGC- -5'
11457 5' -61.4 NC_003085.1 + 24662 0.67 0.359107
Target:  5'- gCGCgCCGcGACGGGCUgaGCGGCaccaugUUCCGg -3'
miRNA:   3'- -GUG-GGCuCUGCUCGG--CGCCGa-----AGGGC- -5'
11457 5' -61.4 NC_003085.1 + 24809 0.67 0.327359
Target:  5'- aGCCCGucGCG-GCgCGCGGCUUUCa- -3'
miRNA:   3'- gUGGGCucUGCuCG-GCGCCGAAGGgc -5'
11457 5' -61.4 NC_003085.1 + 25390 1.07 0.000355
Target:  5'- cCACCCGAGACGAGCCGCGGCUUCCCGc -3'
miRNA:   3'- -GUGGGCUCUGCUCGGCGCCGAAGGGC- -5'
11457 5' -61.4 NC_003085.1 + 27911 0.66 0.401722
Target:  5'- gGCCCuc-GCGGGCCGCGcGUggUUCCGg -3'
miRNA:   3'- gUGGGcucUGCUCGGCGC-CGa-AGGGC- -5'
11457 5' -61.4 NC_003085.1 + 29153 0.7 0.221422
Target:  5'- cUACUCGcAGGCGAcGUCGCGGUUggaCCCGc -3'
miRNA:   3'- -GUGGGC-UCUGCU-CGGCGCCGAa--GGGC- -5'
11457 5' -61.4 NC_003085.1 + 29338 0.66 0.370715
Target:  5'- cCGCCgCGGGGCaGGCCGUcuucaaccaggacauGGCcgCCCGg -3'
miRNA:   3'- -GUGG-GCUCUGcUCGGCG---------------CCGaaGGGC- -5'
11457 5' -61.4 NC_003085.1 + 30006 0.68 0.289966
Target:  5'- gGCCCuGGGCGGccuuggcgacgucGuCCGCGGCUUCCa- -3'
miRNA:   3'- gUGGGcUCUGCU-------------C-GGCGCCGAAGGgc -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.