miRNA display CGI


Results 1 - 13 of 13 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
23126 3' -55.6 NC_005178.1 + 19653 1.07 0.000713
Target:  5'- aGAAAUCGCUCCACCGCCAUCCGCGUGc -3'
miRNA:   3'- -CUUUAGCGAGGUGGCGGUAGGCGCAC- -5'
23126 3' -55.6 NC_005178.1 + 34570 0.7 0.340758
Target:  5'- ----aCGCUCgGCagGCCAUCCGCGc- -3'
miRNA:   3'- cuuuaGCGAGgUGg-CGGUAGGCGCac -5'
23126 3' -55.6 NC_005178.1 + 32283 0.69 0.422846
Target:  5'- ----gCGCUCUguagcGCCGCCA-CCGaCGUGg -3'
miRNA:   3'- cuuuaGCGAGG-----UGGCGGUaGGC-GCAC- -5'
23126 3' -55.6 NC_005178.1 + 19529 0.68 0.44264
Target:  5'- ---cUUGCgaaCGacCCGCCAUCUGCGUGa -3'
miRNA:   3'- cuuuAGCGag-GU--GGCGGUAGGCGCAC- -5'
23126 3' -55.6 NC_005178.1 + 12037 0.67 0.50495
Target:  5'- ----gCGCUUUcCUGCCAUCCGCugGUGg -3'
miRNA:   3'- cuuuaGCGAGGuGGCGGUAGGCG--CAC- -5'
23126 3' -55.6 NC_005178.1 + 12806 0.67 0.51571
Target:  5'- gGAGGUCGCg--GCCGCCAuguUCgGCGUc -3'
miRNA:   3'- -CUUUAGCGaggUGGCGGU---AGgCGCAc -5'
23126 3' -55.6 NC_005178.1 + 8468 0.67 0.537499
Target:  5'- cGGGAUUGCUCCAggauugaaCGCCGUgCCGCc-- -3'
miRNA:   3'- -CUUUAGCGAGGUg-------GCGGUA-GGCGcac -5'
23126 3' -55.6 NC_005178.1 + 15272 0.66 0.57074
Target:  5'- -----gGCUUCAUCGCCcgCCGCcUGg -3'
miRNA:   3'- cuuuagCGAGGUGGCGGuaGGCGcAC- -5'
23126 3' -55.6 NC_005178.1 + 26830 0.66 0.581938
Target:  5'- ----gUGCUCaUGCCGCCAUCCugGCGg- -3'
miRNA:   3'- cuuuaGCGAG-GUGGCGGUAGG--CGCac -5'
23126 3' -55.6 NC_005178.1 + 13125 0.66 0.59318
Target:  5'- uGGAggUGCUCCAgCGCCuggccagcuucAUCCGUGa- -3'
miRNA:   3'- -CUUuaGCGAGGUgGCGG-----------UAGGCGCac -5'
23126 3' -55.6 NC_005178.1 + 24964 0.66 0.59318
Target:  5'- cGAAG-CGCUCCagGCgGCCGUCgaUGCGUu -3'
miRNA:   3'- -CUUUaGCGAGG--UGgCGGUAG--GCGCAc -5'
23126 3' -55.6 NC_005178.1 + 14959 0.66 0.604457
Target:  5'- uGGAcgUGgUCgGgCCGCCAUCCGCa-- -3'
miRNA:   3'- -CUUuaGCgAGgU-GGCGGUAGGCGcac -5'
23126 3' -55.6 NC_005178.1 + 5436 0.66 0.604457
Target:  5'- gGAuGUCGCgacggCCcgGCCGaCCAUUCGCGa- -3'
miRNA:   3'- -CUuUAGCGa----GG--UGGC-GGUAGGCGCac -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.