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 + 72497 0.69 0.677742
Target:  5'- gCCCGCCaucuccuugauauaaCCGACCCuaacacguuAAAcauaccgucuAUACCCCCa -3'
miRNA:   3'- gGGGCGGg--------------GGUUGGG---------UUU----------UAUGGGGG- -5'
2059 3' -57 NC_001348.1 + 69922 0.71 0.555263
Target:  5'- uCCaCCGCCCCCGAuCCCGcugcAAGUaagGCCaCUCg -3'
miRNA:   3'- -GG-GGCGGGGGUU-GGGU----UUUA---UGG-GGG- -5'
2059 3' -57 NC_001348.1 + 105389 0.71 0.57429
Target:  5'- gCCCCGCCUggguuucugacggCCGuUCCGA---GCCCCCg -3'
miRNA:   3'- -GGGGCGGG-------------GGUuGGGUUuuaUGGGGG- -5'
2059 3' -57 NC_001348.1 + 122030 0.7 0.625961
Target:  5'- gCCCgacggaaGCCCUUGGCCCGGAucgGCaCCCCu -3'
miRNA:   3'- -GGGg------CGGGGGUUGGGUUUua-UG-GGGG- -5'
2059 3' -57 NC_001348.1 + 124701 0.7 0.646311
Target:  5'- aCCCC-CCCCCGaaaauaACCCc-----CCCCCg -3'
miRNA:   3'- -GGGGcGGGGGU------UGGGuuuuauGGGGG- -5'
2059 3' -57 NC_001348.1 + 84613 0.7 0.646311
Target:  5'- aUaaGCCCCCAGCCagccaaaAAAAUugCCCg -3'
miRNA:   3'- gGggCGGGGGUUGGg------UUUUAugGGGg -5'
2059 3' -57 NC_001348.1 + 74082 0.7 0.666616
Target:  5'- gCCCCaacuaCCCCagaaGAUCCAAGAcACCCUCu -3'
miRNA:   3'- -GGGGc----GGGGg---UUGGGUUUUaUGGGGG- -5'
2059 3' -57 NC_001348.1 + 38002 0.69 0.676732
Target:  5'- uUUCGCCa-CAAUCCAu-AUACCCCCg -3'
miRNA:   3'- gGGGCGGggGUUGGGUuuUAUGGGGG- -5'
2059 3' -57 NC_001348.1 + 121974 0.69 0.676732
Target:  5'- uCCCUGCCgcgaUCCAGaacCCCGAuaauuCCCCCg -3'
miRNA:   3'- -GGGGCGG----GGGUU---GGGUUuuau-GGGGG- -5'
2059 3' -57 NC_001348.1 + 123757 0.72 0.545321
Target:  5'- aCCCGCgcgggCCCCAagACCCGcgu--CCCCCu -3'
miRNA:   3'- gGGGCG-----GGGGU--UGGGUuuuauGGGGG- -5'
2059 3' -57 NC_001348.1 + 105289 0.72 0.539383
Target:  5'- uCCCCGCCCCCcuCCuCGcuGUcccacgcgucuucacACCCCa -3'
miRNA:   3'- -GGGGCGGGGGuuGG-GUuuUA---------------UGGGGg -5'
2059 3' -57 NC_001348.1 + 119020 0.73 0.474834
Target:  5'- gCCUgGCCggguggaucuCCCAACCCGGAGUACaaaacgcgccggggCCCCg -3'
miRNA:   3'- -GGGgCGG----------GGGUUGGGUUUUAUG--------------GGGG- -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 + 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 + 119936 0.75 0.348743
Target:  5'- aCCgCGCCCCCucCCCAucggcgGGGUaccgcGCCCCCu -3'
miRNA:   3'- -GGgGCGGGGGuuGGGU------UUUA-----UGGGGG- -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 + 122924 0.74 0.435498
Target:  5'- aCCCCGgUCCCGucggaCCAGGcucgcaaggcguacuGUACCCCCg -3'
miRNA:   3'- -GGGGCgGGGGUug---GGUUU---------------UAUGGGGG- -5'
2059 3' -57 NC_001348.1 + 13308 0.73 0.459064
Target:  5'- cCUCCGUCCCC-AUCCGAGAUccugccgggggACCCaCCa -3'
miRNA:   3'- -GGGGCGGGGGuUGGGUUUUA-----------UGGG-GG- -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.