miRNA display CGI


Results 1 - 18 of 18 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
28920 3' -58.4 NC_006146.1 + 48844 0.66 0.865542
Target:  5'- gCUGCUCCUCggagGCgGGCGcgaaGCCGUcGGc -3'
miRNA:   3'- -GGCGAGGAGa---CG-CCGUag--UGGCA-CCu -5'
28920 3' -58.4 NC_006146.1 + 120805 0.66 0.842823
Target:  5'- uCCGCguggCCggacaaGCGGgGcCGCCGUGGAc -3'
miRNA:   3'- -GGCGa---GGaga---CGCCgUaGUGGCACCU- -5'
28920 3' -58.4 NC_006146.1 + 149435 0.66 0.825944
Target:  5'- gUGCUCUUguaggccgagagcUUGCGGC-UCAgcuCCGUGGAg -3'
miRNA:   3'- gGCGAGGA-------------GACGCCGuAGU---GGCACCU- -5'
28920 3' -58.4 NC_006146.1 + 102641 0.67 0.818483
Target:  5'- cCCGCcCCUCcaccgcgugGCGGgAUCucUCGUGGAa -3'
miRNA:   3'- -GGCGaGGAGa--------CGCCgUAGu-GGCACCU- -5'
28920 3' -58.4 NC_006146.1 + 40133 0.67 0.810041
Target:  5'- cCCGCgaugUCCUUgcgguacaggGCGGCGUCuucuCCGgGGAa -3'
miRNA:   3'- -GGCG----AGGAGa---------CGCCGUAGu---GGCaCCU- -5'
28920 3' -58.4 NC_006146.1 + 150351 0.67 0.810041
Target:  5'- gUGCUCCUCUucCGGCGUUAUCaUGGu -3'
miRNA:   3'- gGCGAGGAGAc-GCCGUAGUGGcACCu -5'
28920 3' -58.4 NC_006146.1 + 93145 0.67 0.801448
Target:  5'- cUCGCUagggCCUCUGCGGCAcUAuCCG-GGu -3'
miRNA:   3'- -GGCGA----GGAGACGCCGUaGU-GGCaCCu -5'
28920 3' -58.4 NC_006146.1 + 68353 0.67 0.774833
Target:  5'- gCUGCUggacgCCUCUGUGGagAUCcCCGUGGc -3'
miRNA:   3'- -GGCGA-----GGAGACGCCg-UAGuGGCACCu -5'
28920 3' -58.4 NC_006146.1 + 47850 0.68 0.76571
Target:  5'- aCGCgUCC-CUGgaccCGGCGUCuguuuccaagGCCGUGGAc -3'
miRNA:   3'- gGCG-AGGaGAC----GCCGUAG----------UGGCACCU- -5'
28920 3' -58.4 NC_006146.1 + 96851 0.68 0.756475
Target:  5'- cCCGCUucagCCUCUGCcGCGUCAgCCGccGAg -3'
miRNA:   3'- -GGCGA----GGAGACGcCGUAGU-GGCacCU- -5'
28920 3' -58.4 NC_006146.1 + 52880 0.68 0.750884
Target:  5'- uCCGUggUCCUC-GCGGCcccgagccccgcaugGUCugCGUGGc -3'
miRNA:   3'- -GGCG--AGGAGaCGCCG---------------UAGugGCACCu -5'
28920 3' -58.4 NC_006146.1 + 67159 0.68 0.737704
Target:  5'- gCCGCUCCUgagcGCGGCGU--CCG-GGAg -3'
miRNA:   3'- -GGCGAGGAga--CGCCGUAguGGCaCCU- -5'
28920 3' -58.4 NC_006146.1 + 42457 0.68 0.736756
Target:  5'- cCCGCUCCcccucccgcccggUCUGCGGCccggAUCACCcuccccUGGc -3'
miRNA:   3'- -GGCGAGG-------------AGACGCCG----UAGUGGc-----ACCu -5'
28920 3' -58.4 NC_006146.1 + 111586 0.69 0.707948
Target:  5'- aCCGCcagCCUCU-CGGCcagccagGUCACCGUGu- -3'
miRNA:   3'- -GGCGa--GGAGAcGCCG-------UAGUGGCACcu -5'
28920 3' -58.4 NC_006146.1 + 86291 0.72 0.531912
Target:  5'- -aGCUCCUCUGUccGGCAUgGCUGgaguaGGAg -3'
miRNA:   3'- ggCGAGGAGACG--CCGUAgUGGCa----CCU- -5'
28920 3' -58.4 NC_006146.1 + 42658 0.74 0.422482
Target:  5'- aCUGCUCCaaCUGCGGC-UCGCCcgcgGUGGGc -3'
miRNA:   3'- -GGCGAGGa-GACGCCGuAGUGG----CACCU- -5'
28920 3' -58.4 NC_006146.1 + 15130 0.76 0.332061
Target:  5'- gCgGCUCUUCUGCGGCGgggucuacagcuccUCgggcgacGCCGUGGAa -3'
miRNA:   3'- -GgCGAGGAGACGCCGU--------------AG-------UGGCACCU- -5'
28920 3' -58.4 NC_006146.1 + 10854 1.1 0.001744
Target:  5'- gCCGCUCCUCUGCGGCAUCACCGUGGAg -3'
miRNA:   3'- -GGCGAGGAGACGCCGUAGUGGCACCU- -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.