miRNA display CGI


Results 1 - 20 of 49 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
12002 5' -57.3 NC_003278.1 + 34152 0.66 0.474276
Target:  5'- aCCGcGCgcaUCGGUGaGCUgAACCUGGCg -3'
miRNA:   3'- cGGUaCG---GGCCGUaCGAgUUGGACCG- -5'
12002 5' -57.3 NC_003278.1 + 16780 0.66 0.463955
Target:  5'- cGCCugcagcGCCUGGUAcUGCUCaGugCUGaGCg -3'
miRNA:   3'- -CGGua----CGGGCCGU-ACGAG-UugGAC-CG- -5'
12002 5' -57.3 NC_003278.1 + 6515 0.66 0.463955
Target:  5'- cGCCGgaaaUGUacggcugguagaCCGGCAgcaGCUCGACCUuGaGCg -3'
miRNA:   3'- -CGGU----ACG------------GGCCGUa--CGAGUUGGA-C-CG- -5'
12002 5' -57.3 NC_003278.1 + 31267 0.66 0.463955
Target:  5'- cGCa--GCCCGGag----CAGCCUGGCg -3'
miRNA:   3'- -CGguaCGGGCCguacgaGUUGGACCG- -5'
12002 5' -57.3 NC_003278.1 + 13690 0.66 0.463955
Target:  5'- aCC-UGCCCGGUcgcccuucUGC-CGuACCUGGCc -3'
miRNA:   3'- cGGuACGGGCCGu-------ACGaGU-UGGACCG- -5'
12002 5' -57.3 NC_003278.1 + 31750 0.66 0.453752
Target:  5'- gGCCgGUGuCCCgGGCAcccUGCUgGACCUGu- -3'
miRNA:   3'- -CGG-UAC-GGG-CCGU---ACGAgUUGGACcg -5'
12002 5' -57.3 NC_003278.1 + 32101 0.66 0.453752
Target:  5'- aGCC-UGCUCGGUGgcuucgGCUacGCCgUGGCg -3'
miRNA:   3'- -CGGuACGGGCCGUa-----CGAguUGG-ACCG- -5'
12002 5' -57.3 NC_003278.1 + 6557 0.66 0.452739
Target:  5'- cGCCGgcGCCCuGGacaucgccgacuaCGUGCUCGcacacgACCUGGUc -3'
miRNA:   3'- -CGGUa-CGGG-CC-------------GUACGAGU------UGGACCG- -5'
12002 5' -57.3 NC_003278.1 + 23304 0.66 0.443672
Target:  5'- aUCAgGUCCGGCcgGCc---CCUGGCg -3'
miRNA:   3'- cGGUaCGGGCCGuaCGaguuGGACCG- -5'
12002 5' -57.3 NC_003278.1 + 31170 0.66 0.432732
Target:  5'- gGCCAgggcgGCCUGGacCAUGUucUCGGCCcguucguUGGCu -3'
miRNA:   3'- -CGGUa----CGGGCC--GUACG--AGUUGG-------ACCG- -5'
12002 5' -57.3 NC_003278.1 + 22125 0.67 0.423898
Target:  5'- gGCCA-GCuCCGGCA-GCagCAcGCCgGGCa -3'
miRNA:   3'- -CGGUaCG-GGCCGUaCGa-GU-UGGaCCG- -5'
12002 5' -57.3 NC_003278.1 + 12562 0.67 0.420978
Target:  5'- gGCCAgaaccUGgCCGGCcagGUGCUCAuggagauugacgccAcCCUGGUg -3'
miRNA:   3'- -CGGU-----ACgGGCCG---UACGAGU--------------U-GGACCG- -5'
12002 5' -57.3 NC_003278.1 + 28111 0.67 0.404661
Target:  5'- cGCUGcggGCgCGGCAagUGCggCGacACCUGGCa -3'
miRNA:   3'- -CGGUa--CGgGCCGU--ACGa-GU--UGGACCG- -5'
12002 5' -57.3 NC_003278.1 + 2220 0.67 0.395251
Target:  5'- uUCAU-CCCGcaccGCcUGCUCAGCCgGGCg -3'
miRNA:   3'- cGGUAcGGGC----CGuACGAGUUGGaCCG- -5'
12002 5' -57.3 NC_003278.1 + 22924 0.67 0.395251
Target:  5'- aCCGUGaaagCCGGCugccUGCUCuGCCUgcGGCc -3'
miRNA:   3'- cGGUACg---GGCCGu---ACGAGuUGGA--CCG- -5'
12002 5' -57.3 NC_003278.1 + 8421 0.67 0.395251
Target:  5'- cGCCAgccUGCUCGGCGcauccaugGCcaucugCGGCCUGGa -3'
miRNA:   3'- -CGGU---ACGGGCCGUa-------CGa-----GUUGGACCg -5'
12002 5' -57.3 NC_003278.1 + 21617 0.67 0.385984
Target:  5'- aGCCGcUGCUgGcCAUGCUgggCGACCUGGg -3'
miRNA:   3'- -CGGU-ACGGgCcGUACGA---GUUGGACCg -5'
12002 5' -57.3 NC_003278.1 + 7927 0.67 0.376861
Target:  5'- gGCCGucggaaUGUCCGGCAUGgU-GACCUugaGGCc -3'
miRNA:   3'- -CGGU------ACGGGCCGUACgAgUUGGA---CCG- -5'
12002 5' -57.3 NC_003278.1 + 8938 0.67 0.376861
Target:  5'- uGCCGuUGCCCaggaaccccuGGCcguucGaCUCGACCUGGUu -3'
miRNA:   3'- -CGGU-ACGGG----------CCGua---C-GAGUUGGACCG- -5'
12002 5' -57.3 NC_003278.1 + 7076 0.67 0.376861
Target:  5'- cGCCAacgGCCCGGUc--C-CAGCCgGGCa -3'
miRNA:   3'- -CGGUa--CGGGCCGuacGaGUUGGaCCG- -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.