miRNA display CGI


Results 1 - 20 of 31 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
23458 3' -56.7 NC_005259.1 + 32897 0.65 0.734218
Target:  5'- -cGggGGCGAgggUGAgccacccggcccgcUCGGGCGCGGcgGUa -3'
miRNA:   3'- gaCuaCCGCU---GCU--------------AGUCCGCGCCa-CG- -5'
23458 3' -56.7 NC_005259.1 + 27386 0.66 0.727024
Target:  5'- gUGAccGGCGGCGGUgucGGCaGCGGcgGCa -3'
miRNA:   3'- gACUa-CCGCUGCUAgu-CCG-CGCCa-CG- -5'
23458 3' -56.7 NC_005259.1 + 979 0.66 0.727024
Target:  5'- ----cGGCGACGAgacaccggCAGccGUGUGGUGUa -3'
miRNA:   3'- gacuaCCGCUGCUa-------GUC--CGCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 56502 0.66 0.716673
Target:  5'- -cGGUGGCGAUGAuucccUCAGGCauUGGUa- -3'
miRNA:   3'- gaCUACCGCUGCU-----AGUCCGc-GCCAcg -5'
23458 3' -56.7 NC_005259.1 + 24026 0.66 0.706241
Target:  5'- -gGGcUGGCGAaauggaaccgcCGcaacGUCGucGGCGCGGUGCu -3'
miRNA:   3'- gaCU-ACCGCU-----------GC----UAGU--CCGCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 50143 0.66 0.706241
Target:  5'- -cGAuUGGUuGGCGAUCcGGCGCGuGaGCg -3'
miRNA:   3'- gaCU-ACCG-CUGCUAGuCCGCGC-CaCG- -5'
23458 3' -56.7 NC_005259.1 + 61030 0.66 0.705194
Target:  5'- -cGGUGGCGGCGAggucgaccgaCGGGCGgcucaccuugugcCGG-GCa -3'
miRNA:   3'- gaCUACCGCUGCUa---------GUCCGC-------------GCCaCG- -5'
23458 3' -56.7 NC_005259.1 + 46968 0.66 0.695742
Target:  5'- uUGuUGGCcacgccgccGAUGAUCGGGCcGagGGUGCg -3'
miRNA:   3'- gACuACCG---------CUGCUAGUCCG-Cg-CCACG- -5'
23458 3' -56.7 NC_005259.1 + 20511 0.66 0.695742
Target:  5'- ----cGGCGACGGUgucccgagcaCGGGUGCGcUGCc -3'
miRNA:   3'- gacuaCCGCUGCUA----------GUCCGCGCcACG- -5'
23458 3' -56.7 NC_005259.1 + 58919 0.66 0.685185
Target:  5'- ----cGGCGGucuugucguCGG-CGGGCGCGGUGg -3'
miRNA:   3'- gacuaCCGCU---------GCUaGUCCGCGCCACg -5'
23458 3' -56.7 NC_005259.1 + 23127 0.66 0.685185
Target:  5'- gCUGuccGGCaGCGAUguGaCGUGGUGCg -3'
miRNA:   3'- -GACua-CCGcUGCUAguCcGCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 55105 0.67 0.653264
Target:  5'- -cGAUGGCGGCGAaaaaugCAccGGCuGCcGUGCc -3'
miRNA:   3'- gaCUACCGCUGCUa-----GU--CCG-CGcCACG- -5'
23458 3' -56.7 NC_005259.1 + 62699 0.67 0.642574
Target:  5'- -cGGUGucccaucCGGCGAUCAGGCGgGGgaucucGCu -3'
miRNA:   3'- gaCUACc------GCUGCUAGUCCGCgCCa-----CG- -5'
23458 3' -56.7 NC_005259.1 + 3167 0.67 0.621176
Target:  5'- gUGAUgcccGGCGAUGucaAGGuCGuCGGUGCg -3'
miRNA:   3'- gACUA----CCGCUGCuagUCC-GC-GCCACG- -5'
23458 3' -56.7 NC_005259.1 + 23261 0.67 0.621176
Target:  5'- -cGGUGGCcACcaugagcaccaaGAcCGGGCGCGGUGg -3'
miRNA:   3'- gaCUACCGcUG------------CUaGUCCGCGCCACg -5'
23458 3' -56.7 NC_005259.1 + 50494 0.68 0.599815
Target:  5'- -cGAUGaGcCGGuCGAUguGG-GCGGUGCg -3'
miRNA:   3'- gaCUAC-C-GCU-GCUAguCCgCGCCACG- -5'
23458 3' -56.7 NC_005259.1 + 60344 0.68 0.589169
Target:  5'- ----aGGCGGCGAUCAGGuCGaGGcccUGCc -3'
miRNA:   3'- gacuaCCGCUGCUAGUCC-GCgCC---ACG- -5'
23458 3' -56.7 NC_005259.1 + 54508 0.68 0.589169
Target:  5'- --cAUGGCGGCGAUguGGgGUGGcggGUc -3'
miRNA:   3'- gacUACCGCUGCUAguCCgCGCCa--CG- -5'
23458 3' -56.7 NC_005259.1 + 67582 0.68 0.578557
Target:  5'- aUGAUGauCGACGcGUCGGGCGCGagacGUGUu -3'
miRNA:   3'- gACUACc-GCUGC-UAGUCCGCGC----CACG- -5'
23458 3' -56.7 NC_005259.1 + 66901 0.68 0.578557
Target:  5'- gUGAacGGCGGuagaucCGG-CAGcGCGCGGUGCu -3'
miRNA:   3'- gACUa-CCGCU------GCUaGUC-CGCGCCACG- -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.