miRNA display CGI


Results 1 - 17 of 17 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
9280 3' -50.2 NC_002512.2 + 177031 0.66 0.998945
Target:  5'- gCGCGUCCcgccaguugagCCgUAGGUGCUUGUucguGGa -3'
miRNA:   3'- -GCGCAGGaua--------GG-AUCCAUGGAUAu---CC- -5'
9280 3' -50.2 NC_002512.2 + 108949 0.68 0.994708
Target:  5'- gGUGUCgU-UCCUGGuGUGCgUGUGGGc -3'
miRNA:   3'- gCGCAGgAuAGGAUC-CAUGgAUAUCC- -5'
9280 3' -50.2 NC_002512.2 + 226293 0.68 0.995962
Target:  5'- uGCG-CCUGUCCccgagacccccGGgGCCUGUGGGc -3'
miRNA:   3'- gCGCaGGAUAGGau---------CCaUGGAUAUCC- -5'
9280 3' -50.2 NC_002512.2 + 180755 0.67 0.997967
Target:  5'- cCGCGUCCgcgAUCUUGGcGUGCagccGGGc -3'
miRNA:   3'- -GCGCAGGa--UAGGAUC-CAUGgauaUCC- -5'
9280 3' -50.2 NC_002512.2 + 199483 0.67 0.997967
Target:  5'- cCGCGUCCccGUCCgucAGG-GCCgcgAGGa -3'
miRNA:   3'- -GCGCAGGa-UAGGa--UCCaUGGauaUCC- -5'
9280 3' -50.2 NC_002512.2 + 154168 0.67 0.998264
Target:  5'- gGCGguacCCUGUgguuuuuuucccgCgCUAGGUGCCcGUAGGa -3'
miRNA:   3'- gCGCa---GGAUA-------------G-GAUCCAUGGaUAUCC- -5'
9280 3' -50.2 NC_002512.2 + 155585 0.67 0.998295
Target:  5'- gGaCGUCCUGUCCUccgucgAGG-ACCacgGGGa -3'
miRNA:   3'- gC-GCAGGAUAGGA------UCCaUGGauaUCC- -5'
9280 3' -50.2 NC_002512.2 + 206175 0.67 0.998576
Target:  5'- cCGCGUCUcGUCCUGGGgcacggacACC---AGGa -3'
miRNA:   3'- -GCGCAGGaUAGGAUCCa-------UGGauaUCC- -5'
9280 3' -50.2 NC_002512.2 + 93094 0.66 0.999467
Target:  5'- gCGCGUCgU-UCCUGGGcuucUGCCUGUu-- -3'
miRNA:   3'- -GCGCAGgAuAGGAUCC----AUGGAUAucc -5'
9280 3' -50.2 NC_002512.2 + 75659 1.13 0.010551
Target:  5'- gCGCGUCCUAUCCUAGGUACCUAUAGGg -3'
miRNA:   3'- -GCGCAGGAUAGGAUCCAUGGAUAUCC- -5'
9280 3' -50.2 NC_002512.2 + 75687 0.7 0.983028
Target:  5'- ----aCCUAUCCUAGGU-CCUAcGGGc -3'
miRNA:   3'- gcgcaGGAUAGGAUCCAuGGAUaUCC- -5'
9280 3' -50.2 NC_002512.2 + 108081 0.7 0.984879
Target:  5'- uGCGUgCUGUCCaccacguggaAGGUACCacgcagGUAGGg -3'
miRNA:   3'- gCGCAgGAUAGGa---------UCCAUGGa-----UAUCC- -5'
9280 3' -50.2 NC_002512.2 + 93467 0.68 0.995439
Target:  5'- uCGUGUCCgGUCaUGGGaUACCagAUGGGg -3'
miRNA:   3'- -GCGCAGGaUAGgAUCC-AUGGa-UAUCC- -5'
9280 3' -50.2 NC_002512.2 + 83397 0.67 0.997967
Target:  5'- gCGCGUCCccgCCguggGGGUuuCCgugGUGGGu -3'
miRNA:   3'- -GCGCAGGauaGGa---UCCAu-GGa--UAUCC- -5'
9280 3' -50.2 NC_002512.2 + 11275 0.67 0.997967
Target:  5'- gCGCGUCCUucgaGUCCgcGGgcgagACCccgGGGa -3'
miRNA:   3'- -GCGCAGGA----UAGGauCCa----UGGauaUCC- -5'
9280 3' -50.2 NC_002512.2 + 226493 0.67 0.998576
Target:  5'- cCGUgGUCCU---CUGGGgACCUGUGGGc -3'
miRNA:   3'- -GCG-CAGGAuagGAUCCaUGGAUAUCC- -5'
9280 3' -50.2 NC_002512.2 + 44846 0.66 0.999023
Target:  5'- gGCGUCCaggAUCCUAGGgcUCUc---- -3'
miRNA:   3'- gCGCAGGa--UAGGAUCCauGGAuaucc -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.