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
26019 3' -55 NC_005342.2 + 31572 0.65 0.700155
Target:  5'- gGUUGUuUGCcUGCaucuGCUGAAUCGCGGCa -3'
miRNA:   3'- -UAGCAcACGaGCG----CGGCUUAGUGCUG- -5'
26019 3' -55 NC_005342.2 + 4134 0.66 0.678018
Target:  5'- uUCGUGUacagcgcgccgcGCUCGUGCUGca--GCGGCg -3'
miRNA:   3'- uAGCACA------------CGAGCGCGGCuuagUGCUG- -5'
26019 3' -55 NC_005342.2 + 34993 0.66 0.674679
Target:  5'- cGUCGauuUGUcGaugCGCGCCGAgcugaucaaccgcuAUCGCGACa -3'
miRNA:   3'- -UAGC---ACA-Cga-GCGCGGCU--------------UAGUGCUG- -5'
26019 3' -55 NC_005342.2 + 36097 0.66 0.666875
Target:  5'- -aCGacaagGUGCUCGCGCCc-GUCuCGGCc -3'
miRNA:   3'- uaGCa----CACGAGCGCGGcuUAGuGCUG- -5'
26019 3' -55 NC_005342.2 + 19193 0.66 0.654579
Target:  5'- gAUCGUgggcggcgcaGUGCUCGCGCuCGucAUCgugcuggccgcacGCGACg -3'
miRNA:   3'- -UAGCA----------CACGAGCGCG-GCu-UAG-------------UGCUG- -5'
26019 3' -55 NC_005342.2 + 45917 0.66 0.6445
Target:  5'- -gCGcGU-CUCGCGCCGGAUCAgCGcCa -3'
miRNA:   3'- uaGCaCAcGAGCGCGGCUUAGU-GCuG- -5'
26019 3' -55 NC_005342.2 + 2695 0.66 0.6445
Target:  5'- cGUCGgcgagGuUGUUCGUGCCc-GUCACGGCc -3'
miRNA:   3'- -UAGCa----C-ACGAGCGCGGcuUAGUGCUG- -5'
26019 3' -55 NC_005342.2 + 12148 0.67 0.610875
Target:  5'- -aCGUGgcugGCgcgcaGCGCCGcGUCACGGg -3'
miRNA:   3'- uaGCACa---CGag---CGCGGCuUAGUGCUg -5'
26019 3' -55 NC_005342.2 + 9309 0.67 0.610875
Target:  5'- cUCGgcgcuuucGUGUUCGuCGUCGGcgCGCGGCg -3'
miRNA:   3'- uAGCa-------CACGAGC-GCGGCUuaGUGCUG- -5'
26019 3' -55 NC_005342.2 + 19913 0.68 0.56635
Target:  5'- ----cGUGCUCaCGCCGA-UCACGAg -3'
miRNA:   3'- uagcaCACGAGcGCGGCUuAGUGCUg -5'
26019 3' -55 NC_005342.2 + 30120 0.68 0.555335
Target:  5'- uUCGaacUG-GCaCGCGCCGAuggCGCGACg -3'
miRNA:   3'- uAGC---ACaCGaGCGCGGCUua-GUGCUG- -5'
26019 3' -55 NC_005342.2 + 28381 0.68 0.552043
Target:  5'- gAUCGcgcgcgauuccccuUGUGC-CGCGCCGAccgUGCGACc -3'
miRNA:   3'- -UAGC--------------ACACGaGCGCGGCUua-GUGCUG- -5'
26019 3' -55 NC_005342.2 + 8932 0.68 0.544384
Target:  5'- cAUCGcGUGCgCGgGCUGGAUCguGCGGCc -3'
miRNA:   3'- -UAGCaCACGaGCgCGGCUUAG--UGCUG- -5'
26019 3' -55 NC_005342.2 + 28726 0.68 0.544384
Target:  5'- -gCGUGUGCgUCGCGUgCGGccagCACGAUg -3'
miRNA:   3'- uaGCACACG-AGCGCG-GCUua--GUGCUG- -5'
26019 3' -55 NC_005342.2 + 18196 0.68 0.527013
Target:  5'- cGUCGUGcGCgcggcaucgcaauaCGCGCCGGAaaUCuACGACg -3'
miRNA:   3'- -UAGCACaCGa-------------GCGCGGCUU--AG-UGCUG- -5'
26019 3' -55 NC_005342.2 + 1102 0.69 0.511986
Target:  5'- aGUCG-GUGC-CGUGCUGcg-CGCGACg -3'
miRNA:   3'- -UAGCaCACGaGCGCGGCuuaGUGCUG- -5'
26019 3' -55 NC_005342.2 + 569 0.69 0.484569
Target:  5'- uUCaUGUGCUCGCGCgGAucgaacgugccgcccAUCucgGCGACg -3'
miRNA:   3'- uAGcACACGAGCGCGgCU---------------UAG---UGCUG- -5'
26019 3' -55 NC_005342.2 + 47821 0.7 0.449819
Target:  5'- uGUCGUGcUGCUCgGUGCCGAcgaggCGCaGGCg -3'
miRNA:   3'- -UAGCAC-ACGAG-CGCGGCUua---GUG-CUG- -5'
26019 3' -55 NC_005342.2 + 21096 0.7 0.448818
Target:  5'- cAUCGg--GCUCGCaguguuuGCCGAG-CGCGACg -3'
miRNA:   3'- -UAGCacaCGAGCG-------CGGCUUaGUGCUG- -5'
26019 3' -55 NC_005342.2 + 34323 0.71 0.391118
Target:  5'- cUCGUGcUGCUCGCGCagcugccCGAGUaccgCGCGAUg -3'
miRNA:   3'- uAGCAC-ACGAGCGCG-------GCUUA----GUGCUG- -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.