miRNA display CGI


Results 1 - 20 of 42 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
1602 3' -53.6 NC_001347.2 + 38793 0.66 0.986229
Target:  5'- gCCC-AGCcgGUUGCAGCGGUacagCC-GCACc -3'
miRNA:   3'- -GGGuUCG--CGACGUUGUCAa---GGaCGUG- -5'
1602 3' -53.6 NC_001347.2 + 15381 0.66 0.98451
Target:  5'- aCgCGAGCGCgaGCGGCGuaUUCUGCAg -3'
miRNA:   3'- -GgGUUCGCGa-CGUUGUcaAGGACGUg -5'
1602 3' -53.6 NC_001347.2 + 4885 0.66 0.98451
Target:  5'- cCCCgAGGCGCUGCucugaAGCcaAGUgCCgacgGCGCu -3'
miRNA:   3'- -GGG-UUCGCGACG-----UUG--UCAaGGa---CGUG- -5'
1602 3' -53.6 NC_001347.2 + 2319 0.66 0.98451
Target:  5'- aCCCGcuggcGGCGgaGCugucGCAcUUUCUGCGCg -3'
miRNA:   3'- -GGGU-----UCGCgaCGu---UGUcAAGGACGUG- -5'
1602 3' -53.6 NC_001347.2 + 168955 0.66 0.982632
Target:  5'- gCCCGAGgGcCUGguAgAGUUCgagGCGCa -3'
miRNA:   3'- -GGGUUCgC-GACguUgUCAAGga-CGUG- -5'
1602 3' -53.6 NC_001347.2 + 113414 0.66 0.982632
Target:  5'- gCCCGAcGCGUcGaCAGCAGUgcugCCgcaGCGCu -3'
miRNA:   3'- -GGGUU-CGCGaC-GUUGUCAa---GGa--CGUG- -5'
1602 3' -53.6 NC_001347.2 + 162774 0.66 0.982632
Target:  5'- aCCAcGCGUUGCAAa---UCCUGCuGCa -3'
miRNA:   3'- gGGUuCGCGACGUUgucaAGGACG-UG- -5'
1602 3' -53.6 NC_001347.2 + 95011 0.66 0.978369
Target:  5'- -aCAGGUGCgUGCGaaaGCAGcgCgUGCACg -3'
miRNA:   3'- ggGUUCGCG-ACGU---UGUCaaGgACGUG- -5'
1602 3' -53.6 NC_001347.2 + 209746 0.67 0.973378
Target:  5'- aCCGugGGUGCcgGCGGuaugacggcCAGUUCUUGCGCu -3'
miRNA:   3'- gGGU--UCGCGa-CGUU---------GUCAAGGACGUG- -5'
1602 3' -53.6 NC_001347.2 + 96298 0.67 0.97173
Target:  5'- gCCGAGUGC-GCGGCgcacaugaucaucucGGUgcugagCCUGCACc -3'
miRNA:   3'- gGGUUCGCGaCGUUG---------------UCAa-----GGACGUG- -5'
1602 3' -53.6 NC_001347.2 + 157615 0.67 0.970591
Target:  5'- gCCCGAGCgGCUGCAcgcguuguuggACGGUgucaccgCCU-CGCu -3'
miRNA:   3'- -GGGUUCG-CGACGU-----------UGUCAa------GGAcGUG- -5'
1602 3' -53.6 NC_001347.2 + 95258 0.67 0.970591
Target:  5'- gUCAGGUGCUcgaacacggacGCGAcCAGUUCCaagcgGCGCg -3'
miRNA:   3'- gGGUUCGCGA-----------CGUU-GUCAAGGa----CGUG- -5'
1602 3' -53.6 NC_001347.2 + 28165 0.67 0.970591
Target:  5'- aCCguGGCGC-GUGACGGcccccuaCCUGCGCg -3'
miRNA:   3'- -GGguUCGCGaCGUUGUCaa-----GGACGUG- -5'
1602 3' -53.6 NC_001347.2 + 1665 0.67 0.967602
Target:  5'- cCUCAgccGGCGCUcCGACAgacGUUgCUGCGCg -3'
miRNA:   3'- -GGGU---UCGCGAcGUUGU---CAAgGACGUG- -5'
1602 3' -53.6 NC_001347.2 + 124525 0.67 0.967291
Target:  5'- gCCCGAGCacgcguuGCUGCAACGGacacCCU-CGCc -3'
miRNA:   3'- -GGGUUCG-------CGACGUUGUCaa--GGAcGUG- -5'
1602 3' -53.6 NC_001347.2 + 125496 0.67 0.960989
Target:  5'- gUCCAGGgccucuaggauaCGCUGCGAU--UUCUUGCACu -3'
miRNA:   3'- -GGGUUC------------GCGACGUUGucAAGGACGUG- -5'
1602 3' -53.6 NC_001347.2 + 96921 0.68 0.957356
Target:  5'- gCCCGGGcCGCcGcCAGCGuccGcgCCUGCACg -3'
miRNA:   3'- -GGGUUC-GCGaC-GUUGU---CaaGGACGUG- -5'
1602 3' -53.6 NC_001347.2 + 103657 0.68 0.957356
Target:  5'- aCCAcGCGCaGCGuCAGggCCUGC-Cg -3'
miRNA:   3'- gGGUuCGCGaCGUuGUCaaGGACGuG- -5'
1602 3' -53.6 NC_001347.2 + 168644 0.68 0.953498
Target:  5'- aCCCAcgaaGGCGCgcacGCGcucGCGGUcacgUCCUGgGCa -3'
miRNA:   3'- -GGGU----UCGCGa---CGU---UGUCA----AGGACgUG- -5'
1602 3' -53.6 NC_001347.2 + 78774 0.68 0.953498
Target:  5'- aCCGAGuCGCUGgAACGcUUCCU-CACg -3'
miRNA:   3'- gGGUUC-GCGACgUUGUcAAGGAcGUG- -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.