miRNA display CGI


Results 1 - 20 of 64 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
12211 3' -59.1 NC_003309.1 + 17514 0.65 0.550373
Target:  5'- gCGCGUcggacgucaGCGGCACGCcgacgccGGCcuCaCGCUCGa -3'
miRNA:   3'- -GCGCG---------CGCUGUGUG-------CCGuuG-GCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 22729 0.66 0.541017
Target:  5'- uCGCGCugaucgucgccgGCGACGC-CGaaaacgcguuccGCAACCGCUgCGu -3'
miRNA:   3'- -GCGCG------------CGCUGUGuGC------------CGUUGGCGA-GC- -5'
12211 3' -59.1 NC_003309.1 + 48217 0.66 0.541017
Target:  5'- cCGaGCGCcGCugACGcGCGAUCaGCUCGa -3'
miRNA:   3'- -GCgCGCGcUGugUGC-CGUUGG-CGAGC- -5'
12211 3' -59.1 NC_003309.1 + 3142 0.66 0.541017
Target:  5'- aGCGC-CGGgGCAUccuuCGGCCGCUCGa -3'
miRNA:   3'- gCGCGcGCUgUGUGcc--GUUGGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 47014 0.66 0.539981
Target:  5'- aCGCG-GCGAUugGCGcgucuucGCAGCCaacuugucgacGCUCGg -3'
miRNA:   3'- -GCGCgCGCUGugUGC-------CGUUGG-----------CGAGC- -5'
12211 3' -59.1 NC_003309.1 + 7221 0.66 0.530684
Target:  5'- cCGCGUuuGCG-CGC-CGGCAguACCGC-CGu -3'
miRNA:   3'- -GCGCG--CGCuGUGuGCCGU--UGGCGaGC- -5'
12211 3' -59.1 NC_003309.1 + 22084 0.66 0.530684
Target:  5'- gGCGCGCGGCcCGauguuguaGGCGAa-GCUCa -3'
miRNA:   3'- gCGCGCGCUGuGUg-------CCGUUggCGAGc -5'
12211 3' -59.1 NC_003309.1 + 39467 0.66 0.530684
Target:  5'- uCGUGCaGCGugGacUACuGCGGCCuGCUCGa -3'
miRNA:   3'- -GCGCG-CGCugU--GUGcCGUUGG-CGAGC- -5'
12211 3' -59.1 NC_003309.1 + 24037 0.66 0.520425
Target:  5'- uGCGUGCucgACACGGCuccACCGCcCGu -3'
miRNA:   3'- gCGCGCGcugUGUGCCGu--UGGCGaGC- -5'
12211 3' -59.1 NC_003309.1 + 43515 0.66 0.520425
Target:  5'- uCGCGCGCaucaGguCGCGGCAGucuCCGCggugCGa -3'
miRNA:   3'- -GCGCGCGc---UguGUGCCGUU---GGCGa---GC- -5'
12211 3' -59.1 NC_003309.1 + 9641 0.66 0.510244
Target:  5'- -aCGCGUGACGauccgaaGGCGAUUGCUCa -3'
miRNA:   3'- gcGCGCGCUGUgug----CCGUUGGCGAGc -5'
12211 3' -59.1 NC_003309.1 + 18797 0.66 0.510244
Target:  5'- gCGCcuGCGCGAUGCccgACGGCAagAUCGC-CGu -3'
miRNA:   3'- -GCG--CGCGCUGUG---UGCCGU--UGGCGaGC- -5'
12211 3' -59.1 NC_003309.1 + 53289 0.66 0.500147
Target:  5'- gGCGgGCcACcacCACGucaccGCAACCGCUCGc -3'
miRNA:   3'- gCGCgCGcUGu--GUGC-----CGUUGGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 32391 0.66 0.500147
Target:  5'- aGCG-GCGACGgcucgcUGCGGCGGCCGUg-- -3'
miRNA:   3'- gCGCgCGCUGU------GUGCCGUUGGCGagc -5'
12211 3' -59.1 NC_003309.1 + 21964 0.67 0.49014
Target:  5'- cCGCGCGCGGCAuucauCACGcGUGAagCGCUgGc -3'
miRNA:   3'- -GCGCGCGCUGU-----GUGC-CGUUg-GCGAgC- -5'
12211 3' -59.1 NC_003309.1 + 32054 0.67 0.49014
Target:  5'- gGCGCGCaAUGCACGcuucGCuGGCgGCUCGg -3'
miRNA:   3'- gCGCGCGcUGUGUGC----CG-UUGgCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 5562 0.67 0.480226
Target:  5'- uCGCGCGCGcCGauCGCGGCGGugaggUCGC-CGa -3'
miRNA:   3'- -GCGCGCGCuGU--GUGCCGUU-----GGCGaGC- -5'
12211 3' -59.1 NC_003309.1 + 30992 0.67 0.480226
Target:  5'- uCGCGaGCGGCuACAaccGCAACCGCgugCGa -3'
miRNA:   3'- -GCGCgCGCUG-UGUgc-CGUUGGCGa--GC- -5'
12211 3' -59.1 NC_003309.1 + 47831 0.67 0.480226
Target:  5'- uCGCGCGgGAUgucguugaaguAC-CGGUAcaACUGCUCGu -3'
miRNA:   3'- -GCGCGCgCUG-----------UGuGCCGU--UGGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 17793 0.67 0.474326
Target:  5'- gCGCGUucgGCGugAUACGGCGcacacggaucagccaGCCGUUUu -3'
miRNA:   3'- -GCGCG---CGCugUGUGCCGU---------------UGGCGAGc -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.