miRNA display CGI


Results 1 - 20 of 30 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
31039 3' -50.3 NC_006560.1 + 99220 0.66 0.99701
Target:  5'- gACCGcGgcggGCUGCGgcccggaaacgaggGGGGCGuUGGCCGg -3'
miRNA:   3'- gUGGUaCa---UGAUGU--------------UCCUGC-ACUGGC- -5'
31039 3' -50.3 NC_006560.1 + 68473 0.66 0.996052
Target:  5'- cCGCCA-GUGCgucGCGgaguGGACG-GACCGc -3'
miRNA:   3'- -GUGGUaCAUGa--UGUu---CCUGCaCUGGC- -5'
31039 3' -50.3 NC_006560.1 + 34567 0.66 0.996052
Target:  5'- gGCCGgggGUGCgcgACGGGGA-GaGACCGg -3'
miRNA:   3'- gUGGUa--CAUGa--UGUUCCUgCaCUGGC- -5'
31039 3' -50.3 NC_006560.1 + 107171 0.66 0.996052
Target:  5'- uCACCGaGgcCUGCgAGGGGCG-GACCc -3'
miRNA:   3'- -GUGGUaCauGAUG-UUCCUGCaCUGGc -5'
31039 3' -50.3 NC_006560.1 + 92245 0.66 0.995988
Target:  5'- gGCCAUGUACUACAuGGccaaccagauccuGCGcuacugcGACCa -3'
miRNA:   3'- gUGGUACAUGAUGUuCC-------------UGCa------CUGGc -5'
31039 3' -50.3 NC_006560.1 + 106720 0.66 0.995379
Target:  5'- gGCCAUGUGC-ACcuccGACGUGGCgGu -3'
miRNA:   3'- gUGGUACAUGaUGuuc-CUGCACUGgC- -5'
31039 3' -50.3 NC_006560.1 + 81330 0.66 0.994617
Target:  5'- aGCCA-GUACaGCGcggcccccAGGACGaGGCCGg -3'
miRNA:   3'- gUGGUaCAUGaUGU--------UCCUGCaCUGGC- -5'
31039 3' -50.3 NC_006560.1 + 140262 0.67 0.992786
Target:  5'- gGCCA-GUcCaACGAGGGCGggcGGCCGg -3'
miRNA:   3'- gUGGUaCAuGaUGUUCCUGCa--CUGGC- -5'
31039 3' -50.3 NC_006560.1 + 127044 0.67 0.991701
Target:  5'- aCACgGUGUGC-GCcAGGGCGcUGACgCGa -3'
miRNA:   3'- -GUGgUACAUGaUGuUCCUGC-ACUG-GC- -5'
31039 3' -50.3 NC_006560.1 + 55894 0.67 0.991701
Target:  5'- gCACCGUGUGCggGCGgauggagagggAGGGcCGgcgGACCa -3'
miRNA:   3'- -GUGGUACAUGa-UGU-----------UCCU-GCa--CUGGc -5'
31039 3' -50.3 NC_006560.1 + 5161 0.67 0.987657
Target:  5'- gGCCGgg-GCcGCGGGGGCG-GGCCGc -3'
miRNA:   3'- gUGGUacaUGaUGUUCCUGCaCUGGC- -5'
31039 3' -50.3 NC_006560.1 + 149200 0.67 0.987657
Target:  5'- cCGCCAUGgcgGCga-GGGGGCGcGGCCc -3'
miRNA:   3'- -GUGGUACa--UGaugUUCCUGCaCUGGc -5'
31039 3' -50.3 NC_006560.1 + 38714 0.68 0.986016
Target:  5'- aGCCggGUGCUcagguucuCGAGGACGgccccGGCCGu -3'
miRNA:   3'- gUGGuaCAUGAu-------GUUCCUGCa----CUGGC- -5'
31039 3' -50.3 NC_006560.1 + 70165 0.68 0.982237
Target:  5'- uCAgCAUGUACgcccugGCGgcccGGGGCGUGcucGCCGa -3'
miRNA:   3'- -GUgGUACAUGa-----UGU----UCCUGCAC---UGGC- -5'
31039 3' -50.3 NC_006560.1 + 15698 0.69 0.969487
Target:  5'- gCGCCAcagGggcGCcGCAGGGGCGgcgGGCCGg -3'
miRNA:   3'- -GUGGUa--Ca--UGaUGUUCCUGCa--CUGGC- -5'
31039 3' -50.3 NC_006560.1 + 103067 0.69 0.966307
Target:  5'- cCGCCG-GUuCcGCGGGGACGggggGACCGg -3'
miRNA:   3'- -GUGGUaCAuGaUGUUCCUGCa---CUGGC- -5'
31039 3' -50.3 NC_006560.1 + 148772 0.7 0.955381
Target:  5'- gCGCCAUGUugga-GGGGGCGggcgGGCCGg -3'
miRNA:   3'- -GUGGUACAugaugUUCCUGCa---CUGGC- -5'
31039 3' -50.3 NC_006560.1 + 19720 0.7 0.951259
Target:  5'- aCGCCGUGaUGCUcgcGCGGGGACGggGGCa- -3'
miRNA:   3'- -GUGGUAC-AUGA---UGUUCCUGCa-CUGgc -5'
31039 3' -50.3 NC_006560.1 + 106090 0.7 0.94689
Target:  5'- gGCCcgGUAUccccACGAGGACGcgGGCCa -3'
miRNA:   3'- gUGGuaCAUGa---UGUUCCUGCa-CUGGc -5'
31039 3' -50.3 NC_006560.1 + 106920 0.7 0.941316
Target:  5'- gGCCAUGguccaaaagACAAuGGGCGUGGCCu -3'
miRNA:   3'- gUGGUACauga-----UGUU-CCUGCACUGGc -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.