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
17774 3' -43.5 NC_004629.1 + 102319 0.66 1
Target:  5'- -aGUGGUcuau-UAACAcuGUGCCCUg -3'
miRNA:   3'- cgCACCAauuuuGUUGUauUACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 61673 0.67 1
Target:  5'- aGCG-GGUggAAGGCGAUGUAAUcaucgccuaGCCCUu -3'
miRNA:   3'- -CGCaCCAa-UUUUGUUGUAUUA---------CGGGA- -5'
17774 3' -43.5 NC_004629.1 + 279518 0.67 1
Target:  5'- uCGUGGUUuu-GCAuCAUGuUGCCUa -3'
miRNA:   3'- cGCACCAAuuuUGUuGUAUuACGGGa -5'
17774 3' -43.5 NC_004629.1 + 147059 0.66 1
Target:  5'- -aGUGGUcagGAAACGACGggcugcaccagGCCCa -3'
miRNA:   3'- cgCACCAa--UUUUGUUGUauua-------CGGGa -5'
17774 3' -43.5 NC_004629.1 + 146918 0.66 1
Target:  5'- aCGUGGaucuuu--ACGUAAUGCCCc -3'
miRNA:   3'- cGCACCaauuuuguUGUAUUACGGGa -5'
17774 3' -43.5 NC_004629.1 + 199504 0.67 1
Target:  5'- aCGUGGcUAAAGCAaccgaGCGUGAgcaCCCUg -3'
miRNA:   3'- cGCACCaAUUUUGU-----UGUAUUac-GGGA- -5'
17774 3' -43.5 NC_004629.1 + 114073 0.68 1
Target:  5'- cGC-UGGUUAAauaaauuAACGACAUAAU-CCCUc -3'
miRNA:   3'- -CGcACCAAUU-------UUGUUGUAUUAcGGGA- -5'
17774 3' -43.5 NC_004629.1 + 259128 0.69 1
Target:  5'- aUGUGGUUAAA-CAaguACGUuAUGCCUUa -3'
miRNA:   3'- cGCACCAAUUUuGU---UGUAuUACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 27603 0.69 1
Target:  5'- uGCGU-GUUuuAACAcuauguaaAUAUAAUGCCCUc -3'
miRNA:   3'- -CGCAcCAAuuUUGU--------UGUAUUACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 178459 0.68 1
Target:  5'- uGCGUuaaaaaUAAAAaaaaGACAUAAUGCCCUc -3'
miRNA:   3'- -CGCAcca---AUUUUg---UUGUAUUACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 152758 0.71 0.999993
Target:  5'- ---aGGUgcuguuauuUAAAACGACAUAuUGCCCUc -3'
miRNA:   3'- cgcaCCA---------AUUUUGUUGUAUuACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 215050 0.71 0.999986
Target:  5'- aGCGUGGUUu------CAUGAUGCCUc -3'
miRNA:   3'- -CGCACCAAuuuuguuGUAUUACGGGa -5'
17774 3' -43.5 NC_004629.1 + 132914 0.73 0.999885
Target:  5'- --uUGGaUAauuucuAAACAACAUAAUGCCCUc -3'
miRNA:   3'- cgcACCaAU------UUUGUUGUAUUACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 59520 0.74 0.999378
Target:  5'- aCGUGGUUGAAugGACAUugcAUGUUCa -3'
miRNA:   3'- cGCACCAAUUUugUUGUAu--UACGGGa -5'
17774 3' -43.5 NC_004629.1 + 158371 0.74 0.999378
Target:  5'- --uUGGU----ACGACAUAAUGCCCUc -3'
miRNA:   3'- cgcACCAauuuUGUUGUAUUACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 167995 0.79 0.981342
Target:  5'- uUGUGGUaguuAAAgAACAUAAUGCCCUc -3'
miRNA:   3'- cGCACCAau--UUUgUUGUAUUACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 84841 0.86 0.820481
Target:  5'- aCGUGGUUAugcaauguaaaauACAACAUAAUGCCCUc -3'
miRNA:   3'- cGCACCAAUuu-----------UGUUGUAUUACGGGA- -5'
17774 3' -43.5 NC_004629.1 + 207955 1.12 0.057734
Target:  5'- cGCGUGGUUAAAACAACAUAAUGCCCUc -3'
miRNA:   3'- -CGCACCAAUUUUGUUGUAUUACGGGA- -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.