miRNA display CGI


Results 1 - 20 of 27 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
12119 3' -57.8 NC_003309.1 + 12804 1.07 0.000689
Target:  5'- uGAGCUUGCCCGACGCCGCGAACGACAc -3'
miRNA:   3'- -CUCGAACGGGCUGCGGCGCUUGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 10576 0.68 0.450602
Target:  5'- -cGCUUGCgCCGcCGCCuCG-ACGGCAc -3'
miRNA:   3'- cuCGAACG-GGCuGCGGcGCuUGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 5064 0.68 0.440936
Target:  5'- cGGGCgcgGCggCCGGUGCCGCG-ACGGCGg -3'
miRNA:   3'- -CUCGaa-CG--GGCUGCGGCGCuUGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 5331 0.68 0.440936
Target:  5'- aGAGCggcagcgUGCgCG-CGCCgagcuuGCGAACGACGg -3'
miRNA:   3'- -CUCGa------ACGgGCuGCGG------CGCUUGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 35040 0.68 0.431388
Target:  5'- cGAGCgccUGUgCGACGCCGaCG-ACGugAu -3'
miRNA:   3'- -CUCGa--ACGgGCUGCGGC-GCuUGCugU- -5'
12119 3' -57.8 NC_003309.1 + 45005 0.69 0.412663
Target:  5'- -cGCUUGCgUGAuggaaaucCGCCGCGGACaaGGCAa -3'
miRNA:   3'- cuCGAACGgGCU--------GCGGCGCUUG--CUGU- -5'
12119 3' -57.8 NC_003309.1 + 3847 0.69 0.385538
Target:  5'- uGAGC--GCCUGAuuCGCCcauugcacgGCGAGCGACAu -3'
miRNA:   3'- -CUCGaaCGGGCU--GCGG---------CGCUUGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 10972 0.69 0.385538
Target:  5'- cGAGCgcaucaucgUGCCCGuACG-CGCGAGCGcCGu -3'
miRNA:   3'- -CUCGa--------ACGGGC-UGCgGCGCUUGCuGU- -5'
12119 3' -57.8 NC_003309.1 + 45667 0.69 0.385538
Target:  5'- --cCUUGCCCGACGCCcCGua-GACGu -3'
miRNA:   3'- cucGAACGGGCUGCGGcGCuugCUGU- -5'
12119 3' -57.8 NC_003309.1 + 10829 0.67 0.489363
Target:  5'- cGGCUcGCgCGAgGCCGUGAuccgucucggccaGCGACGc -3'
miRNA:   3'- cUCGAaCGgGCUgCGGCGCU-------------UGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 47502 0.67 0.490378
Target:  5'- cAGCUU-CUCGAgGCgGCGcAGCGACAc -3'
miRNA:   3'- cUCGAAcGGGCUgCGgCGC-UUGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 46287 0.67 0.500578
Target:  5'- cGAGCgcgcgUGCCCuuccuUGCCGUcAGCGGCAu -3'
miRNA:   3'- -CUCGa----ACGGGcu---GCGGCGcUUGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 15426 0.66 0.563516
Target:  5'- -cGCgagUGUCCGGCGCCG-GAAcaccuucgcgcCGACGa -3'
miRNA:   3'- cuCGa--ACGGGCUGCGGCgCUU-----------GCUGU- -5'
12119 3' -57.8 NC_003309.1 + 48225 0.66 0.552851
Target:  5'- cGAGCc-GUCCGAgCGCCGCuGACGcGCGa -3'
miRNA:   3'- -CUCGaaCGGGCU-GCGGCGcUUGC-UGU- -5'
12119 3' -57.8 NC_003309.1 + 18790 0.66 0.552851
Target:  5'- -cGCgaUGCCCGAcggcaagauCGCCGUGAaacgaucgccgGCGGCGa -3'
miRNA:   3'- cuCGa-ACGGGCU---------GCGGCGCU-----------UGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 31730 0.66 0.542247
Target:  5'- uGAGCgugagUGgCCGugGCCGCaugucuggcucgGcGCGACGa -3'
miRNA:   3'- -CUCGa----ACgGGCugCGGCG------------CuUGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 52445 0.66 0.531711
Target:  5'- -cGCUgUGCUCGAUGCUgaacugGCGGGCGAUc -3'
miRNA:   3'- cuCGA-ACGGGCUGCGG------CGCUUGCUGu -5'
12119 3' -57.8 NC_003309.1 + 6509 0.66 0.531711
Target:  5'- -cGCUUGCCgCG-CGCCcGgGAucACGACGc -3'
miRNA:   3'- cuCGAACGG-GCuGCGG-CgCU--UGCUGU- -5'
12119 3' -57.8 NC_003309.1 + 22059 0.67 0.521251
Target:  5'- aAGCUca-CCGcCGCCGCGAGCuGAUAu -3'
miRNA:   3'- cUCGAacgGGCuGCGGCGCUUG-CUGU- -5'
12119 3' -57.8 NC_003309.1 + 10694 0.67 0.510871
Target:  5'- cGAGCUccugcUGCgCGGCGgccgucUCGCGGGCGAUg -3'
miRNA:   3'- -CUCGA-----ACGgGCUGC------GGCGCUUGCUGu -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.