miRNA display CGI


Results 1 - 16 of 16 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
12111 3' -54.9 NC_003309.1 + 18686 0.66 0.729705
Target:  5'- cGAUcCGGCgGCCGgccuucuuagGGUCGGCAAcGgCGAu -3'
miRNA:   3'- -CUA-GCUGaCGGU----------UCAGCCGUU-CgGCU- -5'
12111 3' -54.9 NC_003309.1 + 517 0.66 0.71788
Target:  5'- --cCGGCUcGCCGGGUCGagccccaGCAuugcGCCGAa -3'
miRNA:   3'- cuaGCUGA-CGGUUCAGC-------CGUu---CGGCU- -5'
12111 3' -54.9 NC_003309.1 + 15980 0.66 0.708125
Target:  5'- gGcgCGGCUGCgAGGuuUCGGCAGGgCa- -3'
miRNA:   3'- -CuaGCUGACGgUUC--AGCCGUUCgGcu -5'
12111 3' -54.9 NC_003309.1 + 25564 0.66 0.686242
Target:  5'- uAUCGACcggGUCGGGUguaGCGGGCCGAa -3'
miRNA:   3'- cUAGCUGa--CGGUUCAgc-CGUUCGGCU- -5'
12111 3' -54.9 NC_003309.1 + 7307 0.67 0.653047
Target:  5'- -cUCGAaauccGCacgCAGGUCGGCGAGcCCGAu -3'
miRNA:   3'- cuAGCUga---CG---GUUCAGCCGUUC-GGCU- -5'
12111 3' -54.9 NC_003309.1 + 49943 0.67 0.641928
Target:  5'- -uUCGGCgGCCGAGcCGGUcaguugcccGAGCCa- -3'
miRNA:   3'- cuAGCUGaCGGUUCaGCCG---------UUCGGcu -5'
12111 3' -54.9 NC_003309.1 + 16180 0.67 0.640815
Target:  5'- cGUCGAC-GCCGAucgauccGUCGGCcugcacGCCGAg -3'
miRNA:   3'- cUAGCUGaCGGUU-------CAGCCGuu----CGGCU- -5'
12111 3' -54.9 NC_003309.1 + 33633 0.67 0.6308
Target:  5'- cAUCGA--GCCcucAGUCGGCA-GCCGGg -3'
miRNA:   3'- cUAGCUgaCGGu--UCAGCCGUuCGGCU- -5'
12111 3' -54.9 NC_003309.1 + 33134 0.67 0.619673
Target:  5'- --gCGAUUuCCGAGcacuUCGGCAAGCUGGa -3'
miRNA:   3'- cuaGCUGAcGGUUC----AGCCGUUCGGCU- -5'
12111 3' -54.9 NC_003309.1 + 15244 0.67 0.616337
Target:  5'- cGAUCGACgucgacugaagaUGCCGAugaaagcgcagcacGUCGGC--GCCGAu -3'
miRNA:   3'- -CUAGCUG------------ACGGUU--------------CAGCCGuuCGGCU- -5'
12111 3' -54.9 NC_003309.1 + 15615 0.68 0.597462
Target:  5'- aGAUCGAaauaauCUGCCGcuUCGGCAGuuGCUGGc -3'
miRNA:   3'- -CUAGCU------GACGGUucAGCCGUU--CGGCU- -5'
12111 3' -54.9 NC_003309.1 + 11972 0.71 0.438996
Target:  5'- --gCGGCgcgcGCCGcGUCGGCGuugaAGCCGAa -3'
miRNA:   3'- cuaGCUGa---CGGUuCAGCCGU----UCGGCU- -5'
12111 3' -54.9 NC_003309.1 + 1164 0.71 0.438996
Target:  5'- aAUCGGCUGCC--GUCGGCcGGCUu- -3'
miRNA:   3'- cUAGCUGACGGuuCAGCCGuUCGGcu -5'
12111 3' -54.9 NC_003309.1 + 8318 0.74 0.292215
Target:  5'- cGUCGACcGagaauucgcCCGGGUCgGGCAAGCCGAg -3'
miRNA:   3'- cUAGCUGaC---------GGUUCAG-CCGUUCGGCU- -5'
12111 3' -54.9 NC_003309.1 + 22370 0.76 0.202508
Target:  5'- cGcgCGGcCUGCUc-GUCGGCAAGCCGAu -3'
miRNA:   3'- -CuaGCU-GACGGuuCAGCCGUUCGGCU- -5'
12111 3' -54.9 NC_003309.1 + 7907 1.09 0.000976
Target:  5'- cGAUCGACUGCCAAGUCGGCAAGCCGAu -3'
miRNA:   3'- -CUAGCUGACGGUUCAGCCGUUCGGCU- -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.