miRNA display CGI


Results 1 - 20 of 33 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
11471 3' -59.6 NC_003085.1 + 20430 0.97 0.002403
Target:  5'- uGCUGGaC-GGCGUUGGAGGCAUCCCCCa -3'
miRNA:   3'- -CGACC-GuCCGCAACCUCCGUAGGGGG- -5'
11471 3' -59.6 NC_003085.1 + 8309 0.73 0.148011
Target:  5'- --aGGUAGcCGUUGGAGGCAUCCggCCa -3'
miRNA:   3'- cgaCCGUCcGCAACCUCCGUAGGg-GG- -5'
11471 3' -59.6 NC_003085.1 + 36468 0.73 0.149622
Target:  5'- uGCggGGUAGGUGUUGGAGGUAgccagggcacggagcUCUgCCg -3'
miRNA:   3'- -CGa-CCGUCCGCAACCUCCGU---------------AGGgGG- -5'
11471 3' -59.6 NC_003085.1 + 32574 0.72 0.188301
Target:  5'- aGUUGGCggAGGCGa-GGGGGCuUgCCCCg -3'
miRNA:   3'- -CGACCG--UCCGCaaCCUCCGuAgGGGG- -5'
11471 3' -59.6 NC_003085.1 + 40997 0.72 0.197958
Target:  5'- gGCUGGCccagcGGCGUcgucaucgccgUGGGcgucgcuGGCGUCCUCCu -3'
miRNA:   3'- -CGACCGu----CCGCA-----------ACCU-------CCGUAGGGGG- -5'
11471 3' -59.6 NC_003085.1 + 36915 0.71 0.203744
Target:  5'- --cGGCcagcGGCGcgGGuGGCAUCCCUCu -3'
miRNA:   3'- cgaCCGu---CCGCaaCCuCCGUAGGGGG- -5'
11471 3' -59.6 NC_003085.1 + 19154 0.71 0.209131
Target:  5'- cGCUGGguGGCcaUGGGGuCGUCCUCa -3'
miRNA:   3'- -CGACCguCCGcaACCUCcGUAGGGGg -5'
11471 3' -59.6 NC_003085.1 + 39683 0.71 0.21464
Target:  5'- aGCa-GCAGGCGcUGGAGGCucGUCUCuCCg -3'
miRNA:   3'- -CGacCGUCCGCaACCUCCG--UAGGG-GG- -5'
11471 3' -59.6 NC_003085.1 + 140 0.69 0.276793
Target:  5'- --gGGCGGGaCGgagcugGGAGGUcgCCuCCCg -3'
miRNA:   3'- cgaCCGUCC-GCaa----CCUCCGuaGG-GGG- -5'
11471 3' -59.6 NC_003085.1 + 42743 0.69 0.283743
Target:  5'- gGCgauGCGGGCGcggUGGAcGGCAUCCaucgCCg -3'
miRNA:   3'- -CGac-CGUCCGCa--ACCU-CCGUAGGg---GG- -5'
11471 3' -59.6 NC_003085.1 + 46423 0.69 0.290829
Target:  5'- uCUGGCGGGCGagUGGAGuaGUggaCCUCg -3'
miRNA:   3'- cGACCGUCCGCa-ACCUCcgUAg--GGGG- -5'
11471 3' -59.6 NC_003085.1 + 38142 0.69 0.305416
Target:  5'- cGCccuGCuGGCGUUGGugguGGCGcUCCCCg -3'
miRNA:   3'- -CGac-CGuCCGCAACCu---CCGU-AGGGGg -5'
11471 3' -59.6 NC_003085.1 + 16394 0.68 0.319787
Target:  5'- aGUUGGCAGGUGUcGaGGGcGCGUUgaagcgucucuggCCCCa -3'
miRNA:   3'- -CGACCGUCCGCAaC-CUC-CGUAG-------------GGGG- -5'
11471 3' -59.6 NC_003085.1 + 49295 0.68 0.336254
Target:  5'- uGCUGcgucGCGucGGCGUcccgGGAGGCGaCCuCCCa -3'
miRNA:   3'- -CGAC----CGU--CCGCAa---CCUCCGUaGG-GGG- -5'
11471 3' -59.6 NC_003085.1 + 35003 0.68 0.34431
Target:  5'- uGCUGGCcgAGGCucUGGAGGCAaggaagaagCCCa- -3'
miRNA:   3'- -CGACCG--UCCGcaACCUCCGUa--------GGGgg -5'
11471 3' -59.6 NC_003085.1 + 43626 0.68 0.352503
Target:  5'- uGCaGaGCGGGCacgGGAGGCcAUCCgCCu -3'
miRNA:   3'- -CGaC-CGUCCGcaaCCUCCG-UAGGgGG- -5'
11471 3' -59.6 NC_003085.1 + 20199 0.67 0.369301
Target:  5'- uGCUGGCcgaauucggacuGGGCGUUgcGGuAGGCcucgcugCCCUCg -3'
miRNA:   3'- -CGACCG------------UCCGCAA--CC-UCCGua-----GGGGG- -5'
11471 3' -59.6 NC_003085.1 + 34952 0.67 0.369301
Target:  5'- uGCUGGCcGGC---GGAGGCG-CCUCa -3'
miRNA:   3'- -CGACCGuCCGcaaCCUCCGUaGGGGg -5'
11471 3' -59.6 NC_003085.1 + 21815 0.67 0.369301
Target:  5'- cGgUGGCGaugcGGCGUcccgcUGGcGGCGagCCCCCc -3'
miRNA:   3'- -CgACCGU----CCGCA-----ACCuCCGUa-GGGGG- -5'
11471 3' -59.6 NC_003085.1 + 9060 0.67 0.369301
Target:  5'- gGC-GGCAGGUG-UGGuGGUucggCCCCa -3'
miRNA:   3'- -CGaCCGUCCGCaACCuCCGua--GGGGg -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.