miRNA display CGI


Results 1 - 20 of 99 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
22855 3' -53.5 NC_005137.2 + 3 0.73 0.632496
Target:  5'- aGUACGCGGgGCcaGUGAAcAGCgGCGCGu -3'
miRNA:   3'- -CGUGCGCCgCG--UAUUUaUCG-CGCGCu -5'
22855 3' -53.5 NC_005137.2 + 1541 0.66 0.956872
Target:  5'- uUACGCauGCGCAUuaacguggcaAAAUGGCGCGaUGAu -3'
miRNA:   3'- cGUGCGc-CGCGUA----------UUUAUCGCGC-GCU- -5'
22855 3' -53.5 NC_005137.2 + 2013 0.66 0.952873
Target:  5'- uGCACgcuGCGGCGCAgacUAuuUAGguCGCGCc- -3'
miRNA:   3'- -CGUG---CGCCGCGU---AUuuAUC--GCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 7154 0.78 0.370206
Target:  5'- -uGCGCGGCGUGUAAGccGCGCGCu- -3'
miRNA:   3'- cgUGCGCCGCGUAUUUauCGCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 7177 0.71 0.765895
Target:  5'- cGCGCGCGuugcaGCGCAUuucGAAccGGCGCGUGc -3'
miRNA:   3'- -CGUGCGC-----CGCGUA---UUUa-UCGCGCGCu -5'
22855 3' -53.5 NC_005137.2 + 10699 0.68 0.899224
Target:  5'- cGUuuCGUGGCGUuc-GAUGGCGUGCa- -3'
miRNA:   3'- -CGu-GCGCCGCGuauUUAUCGCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 10964 0.88 0.096523
Target:  5'- gGCACuuCGGuCGCGUGAAUAGCGCGCGAc -3'
miRNA:   3'- -CGUGc-GCC-GCGUAUUUAUCGCGCGCU- -5'
22855 3' -53.5 NC_005137.2 + 11208 0.66 0.956872
Target:  5'- uGCGuuCGCGGuCGCGUAuacAGUuuuuucuGCGCGCa- -3'
miRNA:   3'- -CGU--GCGCC-GCGUAU---UUAu------CGCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 11296 0.66 0.939412
Target:  5'- cGCuGCGCGGCgggauGCGUAcGUGcuaagcuguguGCGCGCGc -3'
miRNA:   3'- -CG-UGCGCCG-----CGUAUuUAU-----------CGCGCGCu -5'
22855 3' -53.5 NC_005137.2 + 15818 0.67 0.911962
Target:  5'- cGCACGUGGCaugccuuaaacGCAUcg--GGCGCGUu- -3'
miRNA:   3'- -CGUGCGCCG-----------CGUAuuuaUCGCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 16912 0.66 0.939412
Target:  5'- cGCACGCGGCGCu-------CG-GCGAa -3'
miRNA:   3'- -CGUGCGCCGCGuauuuaucGCgCGCU- -5'
22855 3' -53.5 NC_005137.2 + 18767 0.68 0.897228
Target:  5'- aGCACGCGGaacgcCGCGUucaaucaucacuGCGCGCa- -3'
miRNA:   3'- -CGUGCGCC-----GCGUAuuuau-------CGCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 20200 0.68 0.899224
Target:  5'- gGCGgGCGGCGUcgAuugcGAaAGCGCGUa- -3'
miRNA:   3'- -CGUgCGCCGCGuaU----UUaUCGCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 20312 0.67 0.911962
Target:  5'- cGCACGC-GCGCAUGacccgauacuuGAUGGgcucCGCGCa- -3'
miRNA:   3'- -CGUGCGcCGCGUAU-----------UUAUC----GCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 22890 0.69 0.863166
Target:  5'- -gAUGCGGUGCugcGAUcGGCGCGCa- -3'
miRNA:   3'- cgUGCGCCGCGuauUUA-UCGCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 24305 0.66 0.948633
Target:  5'- gGCGuuUGCGGCuGCGguGGUGGCGgGCa- -3'
miRNA:   3'- -CGU--GCGCCG-CGUauUUAUCGCgCGcu -5'
22855 3' -53.5 NC_005137.2 + 26512 0.69 0.830333
Target:  5'- -gACGCGGCcgAUGAcuuaaaaguGUGGCGCGCGu -3'
miRNA:   3'- cgUGCGCCGcgUAUU---------UAUCGCGCGCu -5'
22855 3' -53.5 NC_005137.2 + 26680 0.68 0.905079
Target:  5'- cGCACGUgcgaacguuugauGGCGC-UGAAcGGCG-GCGAa -3'
miRNA:   3'- -CGUGCG-------------CCGCGuAUUUaUCGCgCGCU- -5'
22855 3' -53.5 NC_005137.2 + 28046 0.66 0.944147
Target:  5'- -aACGUGGCGCGac----GCGCGCu- -3'
miRNA:   3'- cgUGCGCCGCGUauuuauCGCGCGcu -5'
22855 3' -53.5 NC_005137.2 + 28709 0.67 0.917957
Target:  5'- uCGCGUaauGGUGCAguuUGAAaGGCGCGCa- -3'
miRNA:   3'- cGUGCG---CCGCGU---AUUUaUCGCGCGcu -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.