miRNA display CGI


Results 1 - 12 of 12 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
26004 3' -56.6 NC_005340.1 + 5 0.66 0.449803
Target:  5'- -uGGCGGgGAaagcauUGCGCGCCaGCgGUGGUg -3'
miRNA:   3'- agUCGCUgCU------ACGCGCGGaCG-UACUA- -5'
26004 3' -56.6 NC_005340.1 + 18195 0.66 0.429397
Target:  5'- gCGGCGGCGAUuaccgGCaCGC-UGCAUGAc -3'
miRNA:   3'- aGUCGCUGCUA-----CGcGCGgACGUACUa -5'
26004 3' -56.6 NC_005340.1 + 11480 0.66 0.409547
Target:  5'- aUCAGCGAUuuAUGC-CGCCcUGCAUGu- -3'
miRNA:   3'- -AGUCGCUGc-UACGcGCGG-ACGUACua -5'
26004 3' -56.6 NC_005340.1 + 8600 0.67 0.390278
Target:  5'- -aGGCGGCGcggGUGUGCaGCCUGCGc--- -3'
miRNA:   3'- agUCGCUGC---UACGCG-CGGACGUacua -5'
26004 3' -56.6 NC_005340.1 + 17572 0.67 0.371612
Target:  5'- aUCAGCGAaaCGAcgGCGCagcuuaaucGCCaGCGUGAg -3'
miRNA:   3'- -AGUCGCU--GCUa-CGCG---------CGGaCGUACUa -5'
26004 3' -56.6 NC_005340.1 + 26018 0.68 0.344774
Target:  5'- gCAGCGAuaCGGcUGCGCGCgUUGC-UGAUg -3'
miRNA:   3'- aGUCGCU--GCU-ACGCGCG-GACGuACUA- -5'
26004 3' -56.6 NC_005340.1 + 17919 0.68 0.322664
Target:  5'- -aAGCGGCGGUauugucaccgagcugGCGCGCCUGUuUGc- -3'
miRNA:   3'- agUCGCUGCUA---------------CGCGCGGACGuACua -5'
26004 3' -56.6 NC_005340.1 + 24989 0.69 0.287696
Target:  5'- aUCGGCaauGGCGcugcAUGCGCGUCUGCA-GAc -3'
miRNA:   3'- -AGUCG---CUGC----UACGCGCGGACGUaCUa -5'
26004 3' -56.6 NC_005340.1 + 20975 0.69 0.280176
Target:  5'- -aGGCGcagGCGAUGCGCGCCgcucagGCuaaGUGGg -3'
miRNA:   3'- agUCGC---UGCUACGCGCGGa-----CG---UACUa -5'
26004 3' -56.6 NC_005340.1 + 15149 0.7 0.250977
Target:  5'- aCAGUGACGGguuuugacuggucUGCGaugGCCUGCAgUGAUg -3'
miRNA:   3'- aGUCGCUGCU-------------ACGCg--CGGACGU-ACUA- -5'
26004 3' -56.6 NC_005340.1 + 6889 0.73 0.15177
Target:  5'- gCAGaCGGuuucCGAUGCGCGCCUGCGc--- -3'
miRNA:   3'- aGUC-GCU----GCUACGCGCGGACGUacua -5'
26004 3' -56.6 NC_005340.1 + 4476 1.07 0.000406
Target:  5'- gUCAGCGACGAUGCGCGCCUGCAUGAUg -3'
miRNA:   3'- -AGUCGCUGCUACGCGCGGACGUACUA- -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.