miRNA display CGI


Results 1 - 20 of 90 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
2059 3' -57 NC_001348.1 + 42611 1.13 0.001183
Target:  5'- aCCCCGCCCCCAACCCAAAAUACCCCCc -3'
miRNA:   3'- -GGGGCGGGGGUUGGGUUUUAUGGGGG- -5'
2059 3' -57 NC_001348.1 + 124129 0.84 0.110286
Target:  5'- gCCgGCCUCCGGCCCGGcg-GCCCCCg -3'
miRNA:   3'- gGGgCGGGGGUUGGGUUuuaUGGGGG- -5'
2059 3' -57 NC_001348.1 + 105663 0.84 0.110286
Target:  5'- gCCgGCCUCCGGCCCGGcg-GCCCCCg -3'
miRNA:   3'- gGGgCGGGGGUUGGGUUuuaUGGGGG- -5'
2059 3' -57 NC_001348.1 + 100438 0.81 0.170572
Target:  5'- -gCCGCCCCCAGCCUAAGuauacAUGCgaCCCCg -3'
miRNA:   3'- ggGGCGGGGGUUGGGUUU-----UAUG--GGGG- -5'
2059 3' -57 NC_001348.1 + 93062 0.77 0.276976
Target:  5'- aCCC-CCCCCugUCCAGAugguguggugcaaGUACCCCCg -3'
miRNA:   3'- gGGGcGGGGGuuGGGUUU-------------UAUGGGGG- -5'
2059 3' -57 NC_001348.1 + 97741 0.76 0.341079
Target:  5'- aCCaaaGCCCCCGAgUCCAAAGUaacgGCCUCCa -3'
miRNA:   3'- gGGg--CGGGGGUU-GGGUUUUA----UGGGGG- -5'
2059 3' -57 NC_001348.1 + 119882 0.75 0.348743
Target:  5'- aCCgCGCCCCCucCCCAucggcgGGGUaccgcGCCCCCu -3'
miRNA:   3'- -GGgGCGGGGGuuGGGU------UUUA-----UGGGGG- -5'
2059 3' -57 NC_001348.1 + 109856 0.75 0.348743
Target:  5'- aCCgCGCCCCCucCCCAucggcgGGGUaccgcGCCCCCu -3'
miRNA:   3'- -GGgGCGGGGGuuGGGU------UUUA-----UGGGGG- -5'
2059 3' -57 NC_001348.1 + 109910 0.75 0.348743
Target:  5'- aCCgCGCCCCCucCCCAucggcgGGGUaccgcGCCCCCu -3'
miRNA:   3'- -GGgGCGGGGGuuGGGU------UUUA-----UGGGGG- -5'
2059 3' -57 NC_001348.1 + 119936 0.75 0.348743
Target:  5'- aCCgCGCCCCCucCCCAucggcgGGGUaccgcGCCCCCu -3'
miRNA:   3'- -GGgGCGGGGGuuGGGU------UUUA-----UGGGGG- -5'
2059 3' -57 NC_001348.1 + 118659 0.75 0.356531
Target:  5'- aCCCCGUCCCCAAagagacCCCAGcGUGCCaUCg -3'
miRNA:   3'- -GGGGCGGGGGUU------GGGUUuUAUGGgGG- -5'
2059 3' -57 NC_001348.1 + 111133 0.75 0.356531
Target:  5'- aCCCCGUCCCCAAagagacCCCAGcGUGCCaUCg -3'
miRNA:   3'- -GGGGCGGGGGUU------GGGUUuUAUGGgGG- -5'
2059 3' -57 NC_001348.1 + 124141 0.74 0.397267
Target:  5'- gCCCUcCCCCCGAuuCCCAGAGUaaugugGCCgCCCg -3'
miRNA:   3'- -GGGGcGGGGGUU--GGGUUUUA------UGG-GGG- -5'
2059 3' -57 NC_001348.1 + 105651 0.74 0.397267
Target:  5'- gCCCUcCCCCCGAuuCCCAGAGUaaugugGCCgCCCg -3'
miRNA:   3'- -GGGGcGGGGGUU--GGGUUUUA------UGG-GGG- -5'
2059 3' -57 NC_001348.1 + 122924 0.74 0.435498
Target:  5'- aCCCCGgUCCCGucggaCCAGGcucgcaaggcguacuGUACCCCCg -3'
miRNA:   3'- -GGGGCgGGGGUug---GGUUU---------------UAUGGGGG- -5'
2059 3' -57 NC_001348.1 + 106868 0.74 0.435498
Target:  5'- aCCCCGgUCCCGucggaCCAGGcucgcaaggcguacuGUACCCCCg -3'
miRNA:   3'- -GGGGCgGGGGUug---GGUUU---------------UAUGGGGG- -5'
2059 3' -57 NC_001348.1 + 105074 0.73 0.449919
Target:  5'- aCCCC-CCCCCGguuucugggcGCCCGGcggACCCCg -3'
miRNA:   3'- -GGGGcGGGGGU----------UGGGUUuuaUGGGGg -5'
2059 3' -57 NC_001348.1 + 13308 0.73 0.459064
Target:  5'- cCUCCGUCCCC-AUCCGAGAUccugccgggggACCCaCCa -3'
miRNA:   3'- -GGGGCGGGGGuUGGGUUUUA-----------UGGG-GG- -5'
2059 3' -57 NC_001348.1 + 110772 0.73 0.474834
Target:  5'- gCCUgGCCggguggaucuCCCAACCCGGAGUACaaaacgcgccggggCCCCg -3'
miRNA:   3'- -GGGgCGG----------GGGUUGGGUUUUAUG--------------GGGG- -5'
2059 3' -57 NC_001348.1 + 119020 0.73 0.474834
Target:  5'- gCCUgGCCggguggaucuCCCAACCCGGAGUACaaaacgcgccggggCCCCg -3'
miRNA:   3'- -GGGgCGG----------GGGUUGGGUUUUAUG--------------GGGG- -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.