miRNA display CGI


Results 1 - 20 of 43 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
10533 3' -51.4 NC_002687.1 + 231473 0.66 0.999585
Target:  5'- aCCAAGGACGaCGGGGACa------- -3'
miRNA:   3'- gGGUUCCUGCaGUUCCUGcuaccuuu -5'
10533 3' -51.4 NC_002687.1 + 85663 0.66 0.999585
Target:  5'- gUCC-GGGugG-UAAGGACGG-GGAAAa -3'
miRNA:   3'- -GGGuUCCugCaGUUCCUGCUaCCUUU- -5'
10533 3' -51.4 NC_002687.1 + 75404 0.66 0.999488
Target:  5'- gCCCGAGGAgcuaUGUUcGGGAUuuUGGGAGg -3'
miRNA:   3'- -GGGUUCCU----GCAGuUCCUGcuACCUUU- -5'
10533 3' -51.4 NC_002687.1 + 11109 0.66 0.999372
Target:  5'- -aCAAGGACaa-GAGGACGAggccGGAAc -3'
miRNA:   3'- ggGUUCCUGcagUUCCUGCUa---CCUUu -5'
10533 3' -51.4 NC_002687.1 + 211520 0.66 0.999333
Target:  5'- cCCCGAGGAagaccuggugguCGUCuccGGGAggacuuucaccgucCGGUGGAAc -3'
miRNA:   3'- -GGGUUCCU------------GCAGu--UCCU--------------GCUACCUUu -5'
10533 3' -51.4 NC_002687.1 + 130230 0.66 0.999072
Target:  5'- aCCCAAaGACcUCAucGGuACGAUGGAAu -3'
miRNA:   3'- -GGGUUcCUGcAGUu-CC-UGCUACCUUu -5'
10533 3' -51.4 NC_002687.1 + 235110 0.66 0.999017
Target:  5'- uUCCGGGGcCGUCcGGGAUGAucccagugauccuuUGGAc- -3'
miRNA:   3'- -GGGUUCCuGCAGuUCCUGCU--------------ACCUuu -5'
10533 3' -51.4 NC_002687.1 + 252546 0.67 0.998655
Target:  5'- -gCAGGGAUGUCGu---CGGUGGAGAg -3'
miRNA:   3'- ggGUUCCUGCAGUuccuGCUACCUUU- -5'
10533 3' -51.4 NC_002687.1 + 84446 0.67 0.998655
Target:  5'- aCCGAGGugcGCGUCGAGGACaaa-GAGAu -3'
miRNA:   3'- gGGUUCC---UGCAGUUCCUGcuacCUUU- -5'
10533 3' -51.4 NC_002687.1 + 259579 0.67 0.998655
Target:  5'- gCgCAggcGGGACugcgAAGGACGAUGGAGAa -3'
miRNA:   3'- -GgGU---UCCUGcag-UUCCUGCUACCUUU- -5'
10533 3' -51.4 NC_002687.1 + 308214 0.67 0.998655
Target:  5'- aCCGAGGGCGccaacaCAGGGGCacUGGAu- -3'
miRNA:   3'- gGGUUCCUGCa-----GUUCCUGcuACCUuu -5'
10533 3' -51.4 NC_002687.1 + 11614 0.67 0.998394
Target:  5'- cCCCGcacAGGACGcCAGGGauGCGGUGcAGAa -3'
miRNA:   3'- -GGGU---UCCUGCaGUUCC--UGCUACcUUU- -5'
10533 3' -51.4 NC_002687.1 + 30506 0.67 0.99809
Target:  5'- cCCCGuugacaaaAGGACGccacUCGAGG-CGAUuGGAGAc -3'
miRNA:   3'- -GGGU--------UCCUGC----AGUUCCuGCUA-CCUUU- -5'
10533 3' -51.4 NC_002687.1 + 196523 0.67 0.99774
Target:  5'- aCCAu-GAUGaaGAGGAUGAUGGAGAu -3'
miRNA:   3'- gGGUucCUGCagUUCCUGCUACCUUU- -5'
10533 3' -51.4 NC_002687.1 + 222114 0.67 0.99774
Target:  5'- aCCAu-GAUGaaGAGGAUGAUGGAGAu -3'
miRNA:   3'- gGGUucCUGCagUUCCUGCUACCUUU- -5'
10533 3' -51.4 NC_002687.1 + 76747 0.68 0.996878
Target:  5'- cCCCAAGGGUGUCccGAGGGCcccGAcGGAGGa -3'
miRNA:   3'- -GGGUUCCUGCAG--UUCCUG---CUaCCUUU- -5'
10533 3' -51.4 NC_002687.1 + 172305 0.68 0.996354
Target:  5'- gCgGGGGugGgacagGAGGugGGUGGAAAc -3'
miRNA:   3'- gGgUUCCugCag---UUCCugCUACCUUU- -5'
10533 3' -51.4 NC_002687.1 + 58955 0.68 0.99576
Target:  5'- aCCCAugu-CGUCcAGGACGAUGGcGAc -3'
miRNA:   3'- -GGGUuccuGCAGuUCCUGCUACCuUU- -5'
10533 3' -51.4 NC_002687.1 + 3948 0.68 0.99576
Target:  5'- aCCGGGGGCGgCGAGGGaag-GGAAAg -3'
miRNA:   3'- gGGUUCCUGCaGUUCCUgcuaCCUUU- -5'
10533 3' -51.4 NC_002687.1 + 132208 0.69 0.993488
Target:  5'- gUCAAGacUGUCGAGG-CGAUGGAAAa -3'
miRNA:   3'- gGGUUCcuGCAGUUCCuGCUACCUUU- -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.