miRNA display CGI


Results 1 - 20 of 52 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
25552 3' -60.5 NC_005337.1 + 79932 0.66 0.72626
Target:  5'- uUGUCGCggaUCUCgaacgugaCGGUGACGgCGUCGCc -3'
miRNA:   3'- -ACAGCG---AGGGg-------GCCGCUGCaGCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 121252 0.66 0.72626
Target:  5'- -cUCGU--CCUCGGUGAaguaGUCGUCGCa -3'
miRNA:   3'- acAGCGagGGGGCCGCUg---CAGCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 26740 0.66 0.716647
Target:  5'- uUGUCGgUgCUCCGGUcgccgcgaaacGugGUCGUCGu -3'
miRNA:   3'- -ACAGCgAgGGGGCCG-----------CugCAGCAGUg -5'
25552 3' -60.5 NC_005337.1 + 62525 0.66 0.716647
Target:  5'- aUG-CGCUCgCCCaccgacaGGCugaccgucGCGUCGUCGCg -3'
miRNA:   3'- -ACaGCGAG-GGGg------CCGc-------UGCAGCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 81873 0.66 0.716647
Target:  5'- aGUCGCgCUCgCCGGUGAgcUCGUCGa -3'
miRNA:   3'- aCAGCGaGGG-GGCCGCUgcAGCAGUg -5'
25552 3' -60.5 NC_005337.1 + 56786 0.66 0.716647
Target:  5'- gGUCGCcgCCaugcaccgcCCCGG-GACG-CGUCGCc -3'
miRNA:   3'- aCAGCGa-GG---------GGGCCgCUGCaGCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 123750 0.66 0.706966
Target:  5'- gUGUcCGCUCCgccaCCGGCaACGUgGcCGCg -3'
miRNA:   3'- -ACA-GCGAGGg---GGCCGcUGCAgCaGUG- -5'
25552 3' -60.5 NC_005337.1 + 122070 0.66 0.706966
Target:  5'- --aCGCUgCCCgCGGaGGUGUCGUCGCu -3'
miRNA:   3'- acaGCGAgGGG-GCCgCUGCAGCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 95125 0.66 0.706966
Target:  5'- gGUCG-UCCUCCaGCGuCGcCGUCAUa -3'
miRNA:   3'- aCAGCgAGGGGGcCGCuGCaGCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 17788 0.66 0.706966
Target:  5'- ---aGCUUCUCCaGGCG-CGUCuGUCGCg -3'
miRNA:   3'- acagCGAGGGGG-CCGCuGCAG-CAGUG- -5'
25552 3' -60.5 NC_005337.1 + 62410 0.66 0.697225
Target:  5'- cGcCGCcucgCCCgUGGCGuCGUCGUgCACc -3'
miRNA:   3'- aCaGCGa---GGGgGCCGCuGCAGCA-GUG- -5'
25552 3' -60.5 NC_005337.1 + 34744 0.66 0.697225
Target:  5'- aGUCgGCggcgCaCCgGGCcGCGUCGUCGCa -3'
miRNA:   3'- aCAG-CGa---GgGGgCCGcUGCAGCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 75008 0.66 0.697225
Target:  5'- cGUUGUUCgCCCGGUGGCGcagcacCGacUCGCa -3'
miRNA:   3'- aCAGCGAGgGGGCCGCUGCa-----GC--AGUG- -5'
25552 3' -60.5 NC_005337.1 + 119836 0.66 0.697225
Target:  5'- cGgCGCUCgguaCCCGGCGccagcgGCGgcaCGUCGCg -3'
miRNA:   3'- aCaGCGAGg---GGGCCGC------UGCa--GCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 40861 0.66 0.687433
Target:  5'- cGUCGCcgugCCCCCGGUgcagagGGCGgcCGUCc- -3'
miRNA:   3'- aCAGCGa---GGGGGCCG------CUGCa-GCAGug -5'
25552 3' -60.5 NC_005337.1 + 129613 0.66 0.677598
Target:  5'- cGUggaGCUCgUCCGGCGGC-UCGUgGCc -3'
miRNA:   3'- aCAg--CGAGgGGGCCGCUGcAGCAgUG- -5'
25552 3' -60.5 NC_005337.1 + 91891 0.66 0.677598
Target:  5'- cGcCGCggcgCCUCCGGgucgccggucaCGACGUgCGUCGCc -3'
miRNA:   3'- aCaGCGa---GGGGGCC-----------GCUGCA-GCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 29666 0.66 0.677598
Target:  5'- cGU-GCUCCCgCGGUGGCGcCGUa-- -3'
miRNA:   3'- aCAgCGAGGGgGCCGCUGCaGCAgug -5'
25552 3' -60.5 NC_005337.1 + 93983 0.67 0.667728
Target:  5'- -aUCGC-CCUCgGGCGAgGagGUCACc -3'
miRNA:   3'- acAGCGaGGGGgCCGCUgCagCAGUG- -5'
25552 3' -60.5 NC_005337.1 + 132833 0.67 0.667728
Target:  5'- gGUCGCgcaCCUCGGCGcCGccgCGcUCGCa -3'
miRNA:   3'- aCAGCGag-GGGGCCGCuGCa--GC-AGUG- -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.