miRNA display CGI


Results 1 - 20 of 29 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
19859 3' -56.1 NC_004687.1 + 69605 0.66 0.914934
Target:  5'- aUCGGGcuGCGGGCGCCg--CCGGAGg- -3'
miRNA:   3'- gAGUUU--UGCUCGCGGgagGGCCUCag -5'
19859 3' -56.1 NC_004687.1 + 27805 0.66 0.902825
Target:  5'- gCUCGAccaccGGCGgcuugGGCGCCuCUgCCGGAGg- -3'
miRNA:   3'- -GAGUU-----UUGC-----UCGCGG-GAgGGCCUCag -5'
19859 3' -56.1 NC_004687.1 + 96897 0.66 0.902825
Target:  5'- gUCAGAaagaguccccGgGGGUGUCCUgCCGGGGUg -3'
miRNA:   3'- gAGUUU----------UgCUCGCGGGAgGGCCUCAg -5'
19859 3' -56.1 NC_004687.1 + 82725 0.66 0.900928
Target:  5'- aUCcuGGCGAagcuggccaucaccGCGCCCggcuucagCCUGGAGUUg -3'
miRNA:   3'- gAGuuUUGCU--------------CGCGGGa-------GGGCCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 108394 0.66 0.89642
Target:  5'- aCUCAucgccAGCGAGCGCgagCUCgCCcgaGGGGUCg -3'
miRNA:   3'- -GAGUu----UUGCUCGCGg--GAG-GG---CCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 17880 0.66 0.89642
Target:  5'- -gCGAuGCGcuGCGCCUUCUCGGugguGUCg -3'
miRNA:   3'- gaGUUuUGCu-CGCGGGAGGGCCu---CAG- -5'
19859 3' -56.1 NC_004687.1 + 35607 0.66 0.89642
Target:  5'- uCUCGuggugguGGCGccggucGGUGCCgUCgCCGGGGUCg -3'
miRNA:   3'- -GAGUu------UUGC------UCGCGGgAG-GGCCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 150976 0.66 0.889787
Target:  5'- -cCGGAACccccuGCGCCa--CCGGAGUCg -3'
miRNA:   3'- gaGUUUUGcu---CGCGGgagGGCCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 143165 0.66 0.889787
Target:  5'- gUCGAGACG-GUGCUCaCCggCGGGGUCu -3'
miRNA:   3'- gAGUUUUGCuCGCGGGaGG--GCCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 95098 0.66 0.889787
Target:  5'- -cCAGAACGAGCcgaugacgGCCUcCCCGGcgguGUCc -3'
miRNA:   3'- gaGUUUUGCUCG--------CGGGaGGGCCu---CAG- -5'
19859 3' -56.1 NC_004687.1 + 100266 0.66 0.889111
Target:  5'- aUCGu--CGGGCGCCUUgaCCCGGAaccgguucucaggGUCg -3'
miRNA:   3'- gAGUuuuGCUCGCGGGA--GGGCCU-------------CAG- -5'
19859 3' -56.1 NC_004687.1 + 133532 0.67 0.883623
Target:  5'- uCUCGcgGCGGauuuCGCCCUCCacaucccuucguucaGGGGUCg -3'
miRNA:   3'- -GAGUuuUGCUc---GCGGGAGGg--------------CCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 59437 0.67 0.861039
Target:  5'- gCUCAAGAUGaAGCGUCCggCgCGGAcgGUCc -3'
miRNA:   3'- -GAGUUUUGC-UCGCGGGa-GgGCCU--CAG- -5'
19859 3' -56.1 NC_004687.1 + 92256 0.67 0.84541
Target:  5'- cCUCAGAGCGAGgGCgga--CGGGGUCg -3'
miRNA:   3'- -GAGUUUUGCUCgCGggaggGCCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 128717 0.67 0.84541
Target:  5'- uUCA--GCGGGuUGCCCUCggcgucgguUCGGGGUCg -3'
miRNA:   3'- gAGUuuUGCUC-GCGGGAG---------GGCCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 138129 0.68 0.82901
Target:  5'- uUCGGGAUaAGUccaGCCCUCCCGGA-UCu -3'
miRNA:   3'- gAGUUUUGcUCG---CGGGAGGGCCUcAG- -5'
19859 3' -56.1 NC_004687.1 + 40131 0.68 0.82817
Target:  5'- aCUCcuGGCGGGCcagGUCCUCCUGGucguugaccacguAGUCg -3'
miRNA:   3'- -GAGuuUUGCUCG---CGGGAGGGCC-------------UCAG- -5'
19859 3' -56.1 NC_004687.1 + 87986 0.68 0.820538
Target:  5'- -gCuuGugGAucugGCGCCCgagCUCGGAGUCc -3'
miRNA:   3'- gaGuuUugCU----CGCGGGa--GGGCCUCAG- -5'
19859 3' -56.1 NC_004687.1 + 9753 0.68 0.803092
Target:  5'- uUCAGAGCGGugcgcGCuGCCCUUCgGGAGg- -3'
miRNA:   3'- gAGUUUUGCU-----CG-CGGGAGGgCCUCag -5'
19859 3' -56.1 NC_004687.1 + 121217 0.69 0.784112
Target:  5'- cCUgAGGACcGGCGUCCUCCaggccauUGGGGUCu -3'
miRNA:   3'- -GAgUUUUGcUCGCGGGAGG-------GCCUCAG- -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.