miRNA display CGI


Results 1 - 20 of 32 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
11492 3' -57.8 NC_003085.1 + 2071 0.68 0.389516
Target:  5'- -uCCAGGaggCCGAGCgcgaAGGCuACGACg -3'
miRNA:   3'- acGGUCCg--GGCUCGaaa-UCCG-UGCUG- -5'
11492 3' -57.8 NC_003085.1 + 2852 0.69 0.354379
Target:  5'- uUGCCGGGaggagCCGAugauGCUgaAGcGCACGACa -3'
miRNA:   3'- -ACGGUCCg----GGCU----CGAaaUC-CGUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 3974 0.66 0.486627
Target:  5'- aGCCAGacGgCCGcGCUUgcGaGCGCGACa -3'
miRNA:   3'- aCGGUC--CgGGCuCGAAauC-CGUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 5200 0.71 0.236894
Target:  5'- aGCCAGGCaggCCGAGUccga-GCGCGACg -3'
miRNA:   3'- aCGGUCCG---GGCUCGaaaucCGUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 5458 0.72 0.204769
Target:  5'- cGCCgAGGCCCGAGUgcgggaguuggAGGCggacaacGCGGCg -3'
miRNA:   3'- aCGG-UCCGGGCUCGaaa--------UCCG-------UGCUG- -5'
11492 3' -57.8 NC_003085.1 + 5992 0.67 0.446308
Target:  5'- uUGCCAguuGGCUCGccuacGGCU--GGGCGCGGa -3'
miRNA:   3'- -ACGGU---CCGGGC-----UCGAaaUCCGUGCUg -5'
11492 3' -57.8 NC_003085.1 + 6797 0.7 0.281611
Target:  5'- -aCCGGGCCCGcacggcggugcaguGGCUauggagguGGCGCGACg -3'
miRNA:   3'- acGGUCCGGGC--------------UCGAaau-----CCGUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 10803 0.67 0.456216
Target:  5'- aGCCGGGUgCGAGUgccacuggAGGCggcaaaccccaGCGGCu -3'
miRNA:   3'- aCGGUCCGgGCUCGaaa-----UCCG-----------UGCUG- -5'
11492 3' -57.8 NC_003085.1 + 11135 1.1 0.00034
Target:  5'- gUGCCAGGCCCGAGCUUUAGGCACGACg -3'
miRNA:   3'- -ACGGUCCGGGCUCGAAAUCCGUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 13611 0.66 0.476381
Target:  5'- cGCCAaGGCaCaAGUg--GGGCACGACu -3'
miRNA:   3'- aCGGU-CCGgGcUCGaaaUCCGUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 14194 0.66 0.517965
Target:  5'- gUGCCAGcGUCCGGGCU------GCGACa -3'
miRNA:   3'- -ACGGUC-CGGGCUCGAaauccgUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 15034 0.68 0.38052
Target:  5'- cGCC-GGCuCCGAGUUUU-GGCugGcCg -3'
miRNA:   3'- aCGGuCCG-GGCUCGAAAuCCGugCuG- -5'
11492 3' -57.8 NC_003085.1 + 16309 0.66 0.476381
Target:  5'- cGCCAugacgggauGGCCCGGGagUUGGGCGaaGCg -3'
miRNA:   3'- aCGGU---------CCGGGCUCgaAAUCCGUgcUG- -5'
11492 3' -57.8 NC_003085.1 + 17642 0.67 0.464228
Target:  5'- cUGCgCAGGCgUGAGCcacgggagggAGGCGCuGGCg -3'
miRNA:   3'- -ACG-GUCCGgGCUCGaaa-------UCCGUG-CUG- -5'
11492 3' -57.8 NC_003085.1 + 17826 0.73 0.191456
Target:  5'- aGUCGGG-CUGGGCUc-AGGCACGACu -3'
miRNA:   3'- aCGGUCCgGGCUCGAaaUCCGUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 17974 0.66 0.507425
Target:  5'- cGCCGGcaGCgCGGGCcgcaGGGCACGGa -3'
miRNA:   3'- aCGGUC--CGgGCUCGaaa-UCCGUGCUg -5'
11492 3' -57.8 NC_003085.1 + 18097 0.73 0.196688
Target:  5'- gGCCGGGgUCGAGCUUcuugucGGCGCGGg -3'
miRNA:   3'- aCGGUCCgGGCUCGAAau----CCGUGCUg -5'
11492 3' -57.8 NC_003085.1 + 19080 0.68 0.38052
Target:  5'- cGCCGGGCCCGGaCgg-AGuGCGCcGCa -3'
miRNA:   3'- aCGGUCCGGGCUcGaaaUC-CGUGcUG- -5'
11492 3' -57.8 NC_003085.1 + 19694 0.72 0.217719
Target:  5'- cGCCAGGgCCaGuGCgcacgaggugGGGCGCGACg -3'
miRNA:   3'- aCGGUCCgGG-CuCGaaa-------UCCGUGCUG- -5'
11492 3' -57.8 NC_003085.1 + 21608 0.66 0.517965
Target:  5'- aUGCguGGCgCGAGCgacccGCGCGAg -3'
miRNA:   3'- -ACGguCCGgGCUCGaaaucCGUGCUg -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.