miRNA display CGI


Results 1 - 17 of 17 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
7331 3' -54.1 NC_001900.1 + 11043 0.67 0.688627
Target:  5'- gGCUGggCGaGGGUcgccaCCGGGCGCGAAACa -3'
miRNA:   3'- aCGGCa-GCcCUCA-----GGCUUGUGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 41953 0.67 0.677609
Target:  5'- aGaCGUUGaGcGAGUCCGGGC-CGAAGCc -3'
miRNA:   3'- aCgGCAGC-C-CUCAGGCUUGuGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 20191 0.68 0.655452
Target:  5'- cUGCUGgagUGGGAGUucaUCGAGaACGAGACc -3'
miRNA:   3'- -ACGGCa--GCCCUCA---GGCUUgUGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 31274 0.69 0.554727
Target:  5'- gGUCGUCaGGAGUCCGAucucgccAC-CGAAGu -3'
miRNA:   3'- aCGGCAGcCCUCAGGCU-------UGuGCUUUg -5'
7331 3' -54.1 NC_001900.1 + 35005 0.7 0.534139
Target:  5'- aGCCcucgCGGGAGUCCucGAuCACGAAcGCa -3'
miRNA:   3'- aCGGca--GCCCUCAGG--CUuGUGCUU-UG- -5'
7331 3' -54.1 NC_001900.1 + 28014 0.72 0.402773
Target:  5'- cGCCGuUCGGGccGGUguaaCCGggUGCGGAGCc -3'
miRNA:   3'- aCGGC-AGCCC--UCA----GGCuuGUGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 28893 1.1 0.001108
Target:  5'- uUGCCGUCGGGAGUCCGAACACGAAACu -3'
miRNA:   3'- -ACGGCAGCCCUCAGGCUUGUGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 3872 0.7 0.534139
Target:  5'- cGCCGUCGaGGucacgCCGAcCGCGAAGg -3'
miRNA:   3'- aCGGCAGC-CCuca--GGCUuGUGCUUUg -5'
7331 3' -54.1 NC_001900.1 + 9655 0.74 0.308941
Target:  5'- aUGCgCGUCGGGGGcuccacCCGGAUcaGCGGGACg -3'
miRNA:   3'- -ACG-GCAGCCCUCa-----GGCUUG--UGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 40978 0.66 0.773792
Target:  5'- cGCgaaGUUGGucGAGUCCGAGgACGGGcuGCa -3'
miRNA:   3'- aCGg--CAGCC--CUCAGGCUUgUGCUU--UG- -5'
7331 3' -54.1 NC_001900.1 + 30952 0.67 0.710485
Target:  5'- aUGCUGgggCGGGAGgagguGCAUGAGGCg -3'
miRNA:   3'- -ACGGCa--GCCCUCaggcuUGUGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 20062 0.67 0.718066
Target:  5'- gGCC-UCGGGAG-CCGAAgGguaaccacuuguccCGGAGCg -3'
miRNA:   3'- aCGGcAGCCCUCaGGCUUgU--------------GCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 24979 0.67 0.721302
Target:  5'- cGCCGUCGuaGGUCCGGucuCGguACa -3'
miRNA:   3'- aCGGCAGCccUCAGGCUuguGCuuUG- -5'
7331 3' -54.1 NC_001900.1 + 8606 0.66 0.732029
Target:  5'- aGCCcaucuuGUCGaGGuacuuGUCCGggUcgGCGAAGCa -3'
miRNA:   3'- aCGG------CAGC-CCu----CAGGCuuG--UGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 45148 0.66 0.732029
Target:  5'- cUGCCG-CGuaccGGAGcCCGcugugccgaGACACGAAGCc -3'
miRNA:   3'- -ACGGCaGC----CCUCaGGC---------UUGUGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 30190 0.66 0.742653
Target:  5'- cGCaCGUCGuGGGUCCGAcguuccuggacACuCGGGACu -3'
miRNA:   3'- aCG-GCAGCcCUCAGGCU-----------UGuGCUUUG- -5'
7331 3' -54.1 NC_001900.1 + 9886 0.66 0.760445
Target:  5'- gUGCCGUacagguccgagagcCGGGuccGGUUCGGAaGCGGGACc -3'
miRNA:   3'- -ACGGCA--------------GCCC---UCAGGCUUgUGCUUUG- -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.