miRNA display CGI


Results 1 - 20 of 28 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
26115 3' -56.7 NC_005342.2 + 12768 0.66 0.636001
Target:  5'- uCGAUGCGUUcaagcCGGUCGGCgugauACCgaGCa -3'
miRNA:   3'- -GCUAUGCGGa----GCCAGCCG-----UGGaaCGc -5'
26115 3' -56.7 NC_005342.2 + 39744 0.66 0.62507
Target:  5'- gCGcgGCGCCaCGGcgCGGaCGCCUcGCa -3'
miRNA:   3'- -GCuaUGCGGaGCCa-GCC-GUGGAaCGc -5'
26115 3' -56.7 NC_005342.2 + 32470 0.66 0.62507
Target:  5'- aGGU-CGCUgccgcCGGccauaagcgCGGCACCUUGCa -3'
miRNA:   3'- gCUAuGCGGa----GCCa--------GCCGUGGAACGc -5'
26115 3' -56.7 NC_005342.2 + 3003 0.66 0.614146
Target:  5'- ---gAUGCCggacaGGUCGGCACCgacaaGCa -3'
miRNA:   3'- gcuaUGCGGag---CCAGCCGUGGaa---CGc -5'
26115 3' -56.7 NC_005342.2 + 9905 0.66 0.603238
Target:  5'- -----gGCUUCGGUCGGCAcacCCUcgagGCGc -3'
miRNA:   3'- gcuaugCGGAGCCAGCCGU---GGAa---CGC- -5'
26115 3' -56.7 NC_005342.2 + 23146 0.66 0.602149
Target:  5'- aCGAUGuuggugccauCGCCcgucacgUCGGUCGGUgcGCCguuuUGCGg -3'
miRNA:   3'- -GCUAU----------GCGG-------AGCCAGCCG--UGGa---ACGC- -5'
26115 3' -56.7 NC_005342.2 + 29560 0.66 0.592354
Target:  5'- gCGuUGCGCUUCGGaCGGCACga-GCa -3'
miRNA:   3'- -GCuAUGCGGAGCCaGCCGUGgaaCGc -5'
26115 3' -56.7 NC_005342.2 + 9218 0.67 0.581503
Target:  5'- aCGGggGCGCCUCGccgcgugCGGCauaGCCUucgUGCGg -3'
miRNA:   3'- -GCUa-UGCGGAGCca-----GCCG---UGGA---ACGC- -5'
26115 3' -56.7 NC_005342.2 + 35926 0.67 0.581503
Target:  5'- -----aGCCUUGGUCGuaGCgaauGCCUUGCGu -3'
miRNA:   3'- gcuaugCGGAGCCAGC--CG----UGGAACGC- -5'
26115 3' -56.7 NC_005342.2 + 25600 0.67 0.559934
Target:  5'- aCGAUaaACGCCUCGcugcuugCGaGCugcCCUUGCGg -3'
miRNA:   3'- -GCUA--UGCGGAGCca-----GC-CGu--GGAACGC- -5'
26115 3' -56.7 NC_005342.2 + 29488 0.67 0.559934
Target:  5'- gGGUACGCCUC---CGGUGCCgggUUGCGc -3'
miRNA:   3'- gCUAUGCGGAGccaGCCGUGG---AACGC- -5'
26115 3' -56.7 NC_005342.2 + 16931 0.67 0.538593
Target:  5'- ---gGCGCCgugcUCGGcgUCGGCGCaggUGCGg -3'
miRNA:   3'- gcuaUGCGG----AGCC--AGCCGUGga-ACGC- -5'
26115 3' -56.7 NC_005342.2 + 19545 0.67 0.528026
Target:  5'- uGAUggGCGCCggucgcaCGGUCGGCGCg--GCa -3'
miRNA:   3'- gCUA--UGCGGa------GCCAGCCGUGgaaCGc -5'
26115 3' -56.7 NC_005342.2 + 6719 0.67 0.528026
Target:  5'- uCGAgcgccacgGCGCCcCGGUCGcGCGCCUcgagGUa -3'
miRNA:   3'- -GCUa-------UGCGGaGCCAGC-CGUGGAa---CGc -5'
26115 3' -56.7 NC_005342.2 + 31214 0.68 0.507131
Target:  5'- gCGGUACGCCUUGccguGUCGGCGCagauCGu -3'
miRNA:   3'- -GCUAUGCGGAGC----CAGCCGUGgaacGC- -5'
26115 3' -56.7 NC_005342.2 + 34800 0.68 0.507131
Target:  5'- aCGAUcguaucGCGCC-CGGUCGGCGaCaUGCu -3'
miRNA:   3'- -GCUA------UGCGGaGCCAGCCGUgGaACGc -5'
26115 3' -56.7 NC_005342.2 + 30328 0.68 0.496816
Target:  5'- gCGA-ACGUgUCGGccaCGGCACCggGCGc -3'
miRNA:   3'- -GCUaUGCGgAGCCa--GCCGUGGaaCGC- -5'
26115 3' -56.7 NC_005342.2 + 30795 0.69 0.427551
Target:  5'- gCGA-GCGCCUgcaGGuUCGGCGCCUgGCc -3'
miRNA:   3'- -GCUaUGCGGAg--CC-AGCCGUGGAaCGc -5'
26115 3' -56.7 NC_005342.2 + 39278 0.69 0.418126
Target:  5'- uCGAgcgGCGUCaCGGUCGGCACgUUcGCc -3'
miRNA:   3'- -GCUa--UGCGGaGCCAGCCGUGgAA-CGc -5'
26115 3' -56.7 NC_005342.2 + 39391 0.69 0.418126
Target:  5'- gCGGcGCGCUUCcuGGUCGGCcuGCCU-GCGc -3'
miRNA:   3'- -GCUaUGCGGAG--CCAGCCG--UGGAaCGC- -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.