miRNA display CGI


Results 1 - 20 of 21 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
16335 3' -61.1 NC_004084.1 + 4488 0.66 0.455027
Target:  5'- aGCUCCUuccGGCCcUCGuGCCGgacguuacaUCUGUUCGa -3'
miRNA:   3'- -CGAGGG---UCGGcAGC-CGGU---------AGGCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 6806 0.66 0.445645
Target:  5'- aGCUCCCGcGCCGUCGacGUCAUaucguugaGUUCGu -3'
miRNA:   3'- -CGAGGGU-CGGCAGC--CGGUAgg------CGAGC- -5'
16335 3' -61.1 NC_004084.1 + 29710 0.66 0.445645
Target:  5'- -gUCCUGGCugagucgcguCGUCuGGCCGUCCGCcCa -3'
miRNA:   3'- cgAGGGUCG----------GCAG-CCGGUAGGCGaGc -5'
16335 3' -61.1 NC_004084.1 + 50289 0.66 0.445645
Target:  5'- uGCcgaCCAGgCGUCGGUCAUCagGUUCa -3'
miRNA:   3'- -CGag-GGUCgGCAGCCGGUAGg-CGAGc -5'
16335 3' -61.1 NC_004084.1 + 54117 0.66 0.437295
Target:  5'- aCUCgCCAggucGCCGUCGGCUuccagcaccugacgCCGUUCGc -3'
miRNA:   3'- cGAG-GGU----CGGCAGCCGGua------------GGCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 31005 0.66 0.436372
Target:  5'- cGCU-CCAGCCGacUCGGCCA---GCUUGu -3'
miRNA:   3'- -CGAgGGUCGGC--AGCCGGUaggCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 5765 0.66 0.427212
Target:  5'- uGC-CCCcGCCGg-GGCC-UCUGCUUGa -3'
miRNA:   3'- -CGaGGGuCGGCagCCGGuAGGCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 16908 0.66 0.418166
Target:  5'- cGUUCCCAGgCGaucgUGGCCGggugCgGUUCGg -3'
miRNA:   3'- -CGAGGGUCgGCa---GCCGGUa---GgCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 16466 0.66 0.418166
Target:  5'- cGCgagCgCAGUCG-CGGCCcuGUCCGCUg- -3'
miRNA:   3'- -CGa--GgGUCGGCaGCCGG--UAGGCGAgc -5'
16335 3' -61.1 NC_004084.1 + 16057 0.67 0.409238
Target:  5'- uGCUCCC-GC--UCGGCCuggCGCUCGa -3'
miRNA:   3'- -CGAGGGuCGgcAGCCGGuagGCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 47941 0.67 0.409238
Target:  5'- cGCUCgaGGCCGUCcgucaGGCCGUCCuggaUCGc -3'
miRNA:   3'- -CGAGggUCGGCAG-----CCGGUAGGcg--AGC- -5'
16335 3' -61.1 NC_004084.1 + 57807 0.67 0.408351
Target:  5'- aGCUCCaucuGCguggucugguugaCGUCGGCCGUCauCUCGa -3'
miRNA:   3'- -CGAGGgu--CG-------------GCAGCCGGUAGgcGAGC- -5'
16335 3' -61.1 NC_004084.1 + 45686 0.67 0.366431
Target:  5'- cGCUCUCugGGCCaGUCGGgCAUCCagaUCGa -3'
miRNA:   3'- -CGAGGG--UCGG-CAGCCgGUAGGcg-AGC- -5'
16335 3' -61.1 NC_004084.1 + 944 0.68 0.334475
Target:  5'- cGCUCCCGGaggagGUCgcgGGCCAUCuCGCggUCGg -3'
miRNA:   3'- -CGAGGGUCgg---CAG---CCGGUAG-GCG--AGC- -5'
16335 3' -61.1 NC_004084.1 + 28068 0.69 0.304606
Target:  5'- aGCaUCCgAcGCCGUCGGCCAcCuCGC-CGa -3'
miRNA:   3'- -CG-AGGgU-CGGCAGCCGGUaG-GCGaGC- -5'
16335 3' -61.1 NC_004084.1 + 35163 0.69 0.304606
Target:  5'- -aUCCCAaagaggaccuuGUCGUCGacGCCA-CCGCUCGg -3'
miRNA:   3'- cgAGGGU-----------CGGCAGC--CGGUaGGCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 14624 0.69 0.297466
Target:  5'- cGCUCCUcGCCGcCGGaCUcUCCGC-CGg -3'
miRNA:   3'- -CGAGGGuCGGCaGCC-GGuAGGCGaGC- -5'
16335 3' -61.1 NC_004084.1 + 53070 0.69 0.297466
Target:  5'- -gUCCCAGUCcUC-GCCGcCCGCUCGg -3'
miRNA:   3'- cgAGGGUCGGcAGcCGGUaGGCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 56828 0.71 0.232558
Target:  5'- aGCUCCCAGCCGggCGacGUCGUccuggacCCGUUCGc -3'
miRNA:   3'- -CGAGGGUCGGCa-GC--CGGUA-------GGCGAGC- -5'
16335 3' -61.1 NC_004084.1 + 5475 0.84 0.025276
Target:  5'- aGCUCCCAGCCGcCGGUCGUgaCgCGCUCGg -3'
miRNA:   3'- -CGAGGGUCGGCaGCCGGUA--G-GCGAGC- -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.