miRNA display CGI


Results 1 - 20 of 21 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
23442 3' -57.3 NC_005259.1 + 33126 0.66 0.707057
Target:  5'- aCGCGGcagcCGCCgCGCGUGaUCuuGCCGu -3'
miRNA:   3'- -GCGUCua--GUGGgGCGCAC-AGugUGGC- -5'
23442 3' -57.3 NC_005259.1 + 65464 0.66 0.69665
Target:  5'- aCG-AGGcCgACUCCGCGUGUCugGCUGc -3'
miRNA:   3'- -GCgUCUaG-UGGGGCGCACAGugUGGC- -5'
23442 3' -57.3 NC_005259.1 + 26112 0.66 0.69665
Target:  5'- aGCAGAcCGCCgCCGCcG-GUCGCcgguCCGa -3'
miRNA:   3'- gCGUCUaGUGG-GGCG-CaCAGUGu---GGC- -5'
23442 3' -57.3 NC_005259.1 + 30661 0.66 0.686185
Target:  5'- cCGCAGcacAUCGCCCgGCGaGUagCugGCCa -3'
miRNA:   3'- -GCGUC---UAGUGGGgCGCaCA--GugUGGc -5'
23442 3' -57.3 NC_005259.1 + 8057 0.66 0.686185
Target:  5'- cCGCcGGUCGCCgCCGacaucgagauCGUGcCGCGCUGg -3'
miRNA:   3'- -GCGuCUAGUGG-GGC----------GCACaGUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 13341 0.66 0.675673
Target:  5'- gGCGGGacCGCCCCGC----CGCACCGa -3'
miRNA:   3'- gCGUCUa-GUGGGGCGcacaGUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 41667 0.66 0.675673
Target:  5'- aGCgGGAUCugCaCCGCGUG-CGuggcCACCGc -3'
miRNA:   3'- gCG-UCUAGugG-GGCGCACaGU----GUGGC- -5'
23442 3' -57.3 NC_005259.1 + 39996 0.66 0.665122
Target:  5'- gGCuGAUCGCCgCCGagcaugaggGUCugACCGg -3'
miRNA:   3'- gCGuCUAGUGG-GGCgca------CAGugUGGC- -5'
23442 3' -57.3 NC_005259.1 + 33250 0.67 0.654543
Target:  5'- uGcCAGAUCugCCCGCa----GCGCCGa -3'
miRNA:   3'- gC-GUCUAGugGGGCGcacagUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 17777 0.67 0.622725
Target:  5'- gGCcGAgcgCACCgaGCGUG-CGCACCGc -3'
miRNA:   3'- gCGuCUa--GUGGggCGCACaGUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 4496 0.68 0.580446
Target:  5'- uGguGAUCGCCaCCGCGccgggaGUgGCGCUGc -3'
miRNA:   3'- gCguCUAGUGG-GGCGCa-----CAgUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 16231 0.68 0.559513
Target:  5'- gGCcGAacgCACCCCG-GUGcugCGCACCGa -3'
miRNA:   3'- gCGuCUa--GUGGGGCgCACa--GUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 61766 0.68 0.549125
Target:  5'- gGCGGcaAUCACCgCCGCauucUG-CACACCGg -3'
miRNA:   3'- gCGUC--UAGUGG-GGCGc---ACaGUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 51389 0.69 0.488282
Target:  5'- aGUGGA-CGCCCCaCGUGuUCACAUCGc -3'
miRNA:   3'- gCGUCUaGUGGGGcGCAC-AGUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 66254 0.7 0.468698
Target:  5'- aCGCAGcgCGgCCCGCGccgggcggcgGcUCACGCCGc -3'
miRNA:   3'- -GCGUCuaGUgGGGCGCa---------C-AGUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 55878 0.71 0.403575
Target:  5'- aGCGccUCGCCCCGaccuCGgggGUCGCGCCGg -3'
miRNA:   3'- gCGUcuAGUGGGGC----GCa--CAGUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 51218 0.72 0.352525
Target:  5'- gGUAGAUCACCgCCGgauCGUaggcccgguacGUCACGCCGu -3'
miRNA:   3'- gCGUCUAGUGG-GGC---GCA-----------CAGUGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 56084 0.72 0.351714
Target:  5'- aGCAGAUCggugcucgucgggGCCaCCGCGUGgC-CACCGa -3'
miRNA:   3'- gCGUCUAG-------------UGG-GGCGCACaGuGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 44301 0.73 0.284872
Target:  5'- aGCGGGUUGCCCUcuuugacgaGCGUGUUgaGCGCCGc -3'
miRNA:   3'- gCGUCUAGUGGGG---------CGCACAG--UGUGGC- -5'
23442 3' -57.3 NC_005259.1 + 23695 0.75 0.222197
Target:  5'- aCGCAGAcUACCgCGuCGUGaUCGCGCCGg -3'
miRNA:   3'- -GCGUCUaGUGGgGC-GCAC-AGUGUGGC- -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.