miRNA display CGI


Results 1 - 20 of 24 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
26753 3' -60.5 NC_005808.1 + 11254 0.66 0.387223
Target:  5'- uGG-CGAUGAGGguuuGCGCUgcgGCGCUGg -3'
miRNA:   3'- -CCaGCUACUCCagc-CGCGGg--CGCGAC- -5'
26753 3' -60.5 NC_005808.1 + 25286 0.66 0.369955
Target:  5'- cGUCGAaugccuUGAGGUCGuGCGgCCgGCcCUGc -3'
miRNA:   3'- cCAGCU------ACUCCAGC-CGC-GGgCGcGAC- -5'
26753 3' -60.5 NC_005808.1 + 15020 0.66 0.369955
Target:  5'- -cUCGAUGguguccgcguuGGuGUUGGCgauGCCCGCGUUGa -3'
miRNA:   3'- ccAGCUAC-----------UC-CAGCCG---CGGGCGCGAC- -5'
26753 3' -60.5 NC_005808.1 + 11488 0.66 0.369955
Target:  5'- uGGUCGccUGcgacaccgcaaAGGgCaGCGCCUGCGCUGg -3'
miRNA:   3'- -CCAGCu-AC-----------UCCaGcCGCGGGCGCGAC- -5'
26753 3' -60.5 NC_005808.1 + 6611 0.67 0.36152
Target:  5'- uGUCGAUGAccagcGGgcgcgUGGCGCUgCGCGCg- -3'
miRNA:   3'- cCAGCUACU-----CCa----GCCGCGG-GCGCGac -5'
26753 3' -60.5 NC_005808.1 + 4820 0.67 0.353221
Target:  5'- ------aGAGGUCGGgGCCgGCGCc- -3'
miRNA:   3'- ccagcuaCUCCAGCCgCGGgCGCGac -5'
26753 3' -60.5 NC_005808.1 + 12380 0.67 0.353221
Target:  5'- cGGUCGgcGA-GUCGaUGCCUGCGCg- -3'
miRNA:   3'- -CCAGCuaCUcCAGCcGCGGGCGCGac -5'
26753 3' -60.5 NC_005808.1 + 3743 0.67 0.353221
Target:  5'- cGGU-GGUGGGcacGUCGGUGCCgC-CGCUGg -3'
miRNA:   3'- -CCAgCUACUC---CAGCCGCGG-GcGCGAC- -5'
26753 3' -60.5 NC_005808.1 + 35167 0.67 0.337029
Target:  5'- cGUCGAggaAGuGUCcgGGCGCCCGCuGCUc -3'
miRNA:   3'- cCAGCUac-UC-CAG--CCGCGGGCG-CGAc -5'
26753 3' -60.5 NC_005808.1 + 9858 0.68 0.313769
Target:  5'- cGUCGAUGAGcGU-GGCaCCggCGCGCUGc -3'
miRNA:   3'- cCAGCUACUC-CAgCCGcGG--GCGCGAC- -5'
26753 3' -60.5 NC_005808.1 + 10852 0.68 0.30629
Target:  5'- uGGUCGAgcaggcccugcgUGGcuucGGUCGGCGCgaUGCGCg- -3'
miRNA:   3'- -CCAGCU------------ACU----CCAGCCGCGg-GCGCGac -5'
26753 3' -60.5 NC_005808.1 + 18563 0.68 0.298949
Target:  5'- cGUCGGUgGAGG-CcGCGCUCGCGgUGa -3'
miRNA:   3'- cCAGCUA-CUCCaGcCGCGGGCGCgAC- -5'
26753 3' -60.5 NC_005808.1 + 25513 0.68 0.298949
Target:  5'- aGGcccgCGAUGAGGUCGGUuuugccgccGCCgGCaGCg- -3'
miRNA:   3'- -CCa---GCUACUCCAGCCG---------CGGgCG-CGac -5'
26753 3' -60.5 NC_005808.1 + 40565 0.68 0.298949
Target:  5'- cGUCGccGAGG-CGGCcgguauGCCgGUGCUGg -3'
miRNA:   3'- cCAGCuaCUCCaGCCG------CGGgCGCGAC- -5'
26753 3' -60.5 NC_005808.1 + 25480 0.68 0.298949
Target:  5'- --aCGAUGAGGgc-GCGCUCGUGCUu -3'
miRNA:   3'- ccaGCUACUCCagcCGCGGGCGCGAc -5'
26753 3' -60.5 NC_005808.1 + 20621 0.68 0.284677
Target:  5'- cGUCGc--AGGUCGGUgucgGCCUGCGCUc -3'
miRNA:   3'- cCAGCuacUCCAGCCG----CGGGCGCGAc -5'
26753 3' -60.5 NC_005808.1 + 30391 0.68 0.277745
Target:  5'- gGGUCGGUGAuaaCGGCGUCCaCGCUu -3'
miRNA:   3'- -CCAGCUACUccaGCCGCGGGcGCGAc -5'
26753 3' -60.5 NC_005808.1 + 35211 0.7 0.221325
Target:  5'- uGGUgGA--AGGUcgccgCGGUGCCCGcCGCUGg -3'
miRNA:   3'- -CCAgCUacUCCA-----GCCGCGGGC-GCGAC- -5'
26753 3' -60.5 NC_005808.1 + 17556 0.72 0.161547
Target:  5'- uGGUCaGaAUGAuGUCGGCGCCgGUGUUGu -3'
miRNA:   3'- -CCAG-C-UACUcCAGCCGCGGgCGCGAC- -5'
26753 3' -60.5 NC_005808.1 + 14839 0.72 0.157284
Target:  5'- aGGUCGAUGccGUUGGCGgCCaGCGCc- -3'
miRNA:   3'- -CCAGCUACucCAGCCGCgGG-CGCGac -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.