miRNA display CGI


Results 1 - 20 of 77 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
16340 3' -57.2 NC_004084.1 + 58121 0.66 0.667913
Target:  5'- -gGGUucucguCGGCGGUCGUCGuCGAgccGCCGu -3'
miRNA:   3'- agUCGu-----GCUGCUAGCGGC-GCUa--CGGC- -5'
16340 3' -57.2 NC_004084.1 + 4160 0.67 0.560911
Target:  5'- aCGGC-CGAUGA-CGUCGCGGuUGCuCGg -3'
miRNA:   3'- aGUCGuGCUGCUaGCGGCGCU-ACG-GC- -5'
16340 3' -57.2 NC_004084.1 + 56314 0.68 0.539911
Target:  5'- gUCcGUucuCGACGAggauUCGCaggcgaGCGAUGCCGu -3'
miRNA:   3'- -AGuCGu--GCUGCU----AGCGg-----CGCUACGGC- -5'
16340 3' -57.2 NC_004084.1 + 11837 1.09 0.00072
Target:  5'- uUCAGCACGACGAUCGCCGCGAUGCCGa -3'
miRNA:   3'- -AGUCGUGCUGCUAGCGGCGCUACGGC- -5'
16340 3' -57.2 NC_004084.1 + 4033 0.66 0.667913
Target:  5'- -uGGaACGGCGAUCGCgucagaGUGAucUGCCGa -3'
miRNA:   3'- agUCgUGCUGCUAGCGg-----CGCU--ACGGC- -5'
16340 3' -57.2 NC_004084.1 + 28980 0.66 0.66149
Target:  5'- cCAGCGCG-CGAcCGacgucggccugaugaCCGCGAUGCa- -3'
miRNA:   3'- aGUCGUGCuGCUaGC---------------GGCGCUACGgc -5'
16340 3' -57.2 NC_004084.1 + 23583 0.66 0.657203
Target:  5'- --cGUACGACGA-CGUCGUGcuccGCCGg -3'
miRNA:   3'- aguCGUGCUGCUaGCGGCGCua--CGGC- -5'
16340 3' -57.2 NC_004084.1 + 2861 0.66 0.657203
Target:  5'- -aGGC-CGACGAguUCGUCGCG--GCCa -3'
miRNA:   3'- agUCGuGCUGCU--AGCGGCGCuaCGGc -5'
16340 3' -57.2 NC_004084.1 + 31522 0.67 0.603506
Target:  5'- cUAuCGCGAUGGaUGCCGCGAUcGCCu -3'
miRNA:   3'- aGUcGUGCUGCUaGCGGCGCUA-CGGc -5'
16340 3' -57.2 NC_004084.1 + 19126 0.67 0.582129
Target:  5'- cUCGGUgcuCGACGAUCGaguCCGCGAcGCg- -3'
miRNA:   3'- -AGUCGu--GCUGCUAGC---GGCGCUaCGgc -5'
16340 3' -57.2 NC_004084.1 + 11095 0.67 0.591733
Target:  5'- gUCGGCgACGA-GAUCGCCGUucgcggcucgaagGAUGUCc -3'
miRNA:   3'- -AGUCG-UGCUgCUAGCGGCG-------------CUACGGc -5'
16340 3' -57.2 NC_004084.1 + 55888 0.66 0.614233
Target:  5'- aCGGCcacccgugcgACGACGAUcCGCCG-GAggaguggGCCGa -3'
miRNA:   3'- aGUCG----------UGCUGCUA-GCGGCgCUa------CGGC- -5'
16340 3' -57.2 NC_004084.1 + 50172 0.66 0.667913
Target:  5'- gUCAGCgGCGuCGAUCGUCuCGAcGUCGc -3'
miRNA:   3'- -AGUCG-UGCuGCUAGCGGcGCUaCGGC- -5'
16340 3' -57.2 NC_004084.1 + 27847 0.67 0.582129
Target:  5'- cCGGUucgcCGACcGUCGCCGCGAugaggauguucgUGUCGa -3'
miRNA:   3'- aGUCGu---GCUGcUAGCGGCGCU------------ACGGC- -5'
16340 3' -57.2 NC_004084.1 + 20889 0.66 0.667913
Target:  5'- gUCAGCccCGGCaGUCGgaGCGGUGaCCGg -3'
miRNA:   3'- -AGUCGu-GCUGcUAGCggCGCUAC-GGC- -5'
16340 3' -57.2 NC_004084.1 + 39310 0.66 0.64647
Target:  5'- -gAGUccAC-ACGGUagcCGCCGCGGUGCUGa -3'
miRNA:   3'- agUCG--UGcUGCUA---GCGGCGCUACGGC- -5'
16340 3' -57.2 NC_004084.1 + 52092 0.67 0.582129
Target:  5'- --cGC-CGACGuuacCGCCGgGAUGUCGa -3'
miRNA:   3'- aguCGuGCUGCua--GCGGCgCUACGGC- -5'
16340 3' -57.2 NC_004084.1 + 47758 0.68 0.55038
Target:  5'- gUUGGCGCGAuccaucauCGA-CGCCGCguuGAUGUCGg -3'
miRNA:   3'- -AGUCGUGCU--------GCUaGCGGCG---CUACGGC- -5'
16340 3' -57.2 NC_004084.1 + 18842 0.66 0.667913
Target:  5'- -uGGCGCGGCuuUCGUCGaCGGUcCCGg -3'
miRNA:   3'- agUCGUGCUGcuAGCGGC-GCUAcGGC- -5'
16340 3' -57.2 NC_004084.1 + 55826 0.66 0.657203
Target:  5'- uUCAcCuCGGCG-UCGuCCGgGAUGCCGu -3'
miRNA:   3'- -AGUcGuGCUGCuAGC-GGCgCUACGGC- -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.