miRNA display CGI


Results 1 - 20 of 40 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
19684 3' -54.7 NC_004686.1 + 23877 0.66 0.747539
Target:  5'- uUCACUCUgGCuuagcuacgucgAGCCAuCCAgGCGUCAa -3'
miRNA:   3'- -AGUGGGAgUG------------UCGGU-GGUgUGUAGUc -5'
19684 3' -54.7 NC_004686.1 + 44403 0.66 0.747539
Target:  5'- gCGCCCUUcgcccCAGCC-CCAUACAUgGa -3'
miRNA:   3'- aGUGGGAGu----GUCGGuGGUGUGUAgUc -5'
19684 3' -54.7 NC_004686.1 + 23932 0.66 0.747539
Target:  5'- -aACCCUugaCGCGGCCGacaAgGCAUCGGg -3'
miRNA:   3'- agUGGGA---GUGUCGGUgg-UgUGUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 16139 0.66 0.736977
Target:  5'- -aGCCUUCACA-CCGCUACcGgGUCAGa -3'
miRNA:   3'- agUGGGAGUGUcGGUGGUG-UgUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 50153 0.66 0.735915
Target:  5'- gCACCgUCaacccacacuGCGGCCAUCGCAuucgcggcgauguCAUCGGg -3'
miRNA:   3'- aGUGGgAG----------UGUCGGUGGUGU-------------GUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 10190 0.66 0.730588
Target:  5'- aUCAagccUCCUCGCAGucugcgcauccguuuCCGCCGCACAccUCAc -3'
miRNA:   3'- -AGU----GGGAGUGUC---------------GGUGGUGUGU--AGUc -5'
19684 3' -54.7 NC_004686.1 + 40523 0.66 0.726308
Target:  5'- gUCAgCCg---GGCCACCGCAUcgCGGg -3'
miRNA:   3'- -AGUgGGagugUCGGUGGUGUGuaGUC- -5'
19684 3' -54.7 NC_004686.1 + 55905 0.66 0.715542
Target:  5'- aCAUgCUCaACAGCCugccgccCCGCACAUCc- -3'
miRNA:   3'- aGUGgGAG-UGUCGGu------GGUGUGUAGuc -5'
19684 3' -54.7 NC_004686.1 + 13498 0.66 0.715542
Target:  5'- -gGCCUUCGCAucCCGCCACAacccCGUCAa -3'
miRNA:   3'- agUGGGAGUGUc-GGUGGUGU----GUAGUc -5'
19684 3' -54.7 NC_004686.1 + 36933 0.66 0.704693
Target:  5'- cCGCCCUCACA-CCGCaacucguGCACAcCGGu -3'
miRNA:   3'- aGUGGGAGUGUcGGUGg------UGUGUaGUC- -5'
19684 3' -54.7 NC_004686.1 + 19072 0.67 0.693771
Target:  5'- cUCAgCCUcCACAGCCACaagaACAUCc- -3'
miRNA:   3'- -AGUgGGA-GUGUCGGUGgug-UGUAGuc -5'
19684 3' -54.7 NC_004686.1 + 33278 0.67 0.693771
Target:  5'- uUCACCCcaagaUCAacaGGCCAagauaagacCCAuCACGUCGGg -3'
miRNA:   3'- -AGUGGG-----AGUg--UCGGU---------GGU-GUGUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 16424 0.67 0.693771
Target:  5'- gCACCC-CACcGUCGCCGCgGCGUCc- -3'
miRNA:   3'- aGUGGGaGUGuCGGUGGUG-UGUAGuc -5'
19684 3' -54.7 NC_004686.1 + 49177 0.67 0.687188
Target:  5'- aCAUCCuUCGCGgcggcuuccucgaacGCCACCACACcaccagccgAUCGGa -3'
miRNA:   3'- aGUGGG-AGUGU---------------CGGUGGUGUG---------UAGUC- -5'
19684 3' -54.7 NC_004686.1 + 42212 0.67 0.671757
Target:  5'- cCGCgCUCcauGCGGCC-CCACAUGUCGu -3'
miRNA:   3'- aGUGgGAG---UGUCGGuGGUGUGUAGUc -5'
19684 3' -54.7 NC_004686.1 + 35772 0.67 0.660687
Target:  5'- uUCGCCgUCGcCGGCCACgACGuuucCGUCAa -3'
miRNA:   3'- -AGUGGgAGU-GUCGGUGgUGU----GUAGUc -5'
19684 3' -54.7 NC_004686.1 + 33952 0.67 0.660687
Target:  5'- cCGCCCUUACcGCCAgcgcCCGCGcCGUUGGu -3'
miRNA:   3'- aGUGGGAGUGuCGGU----GGUGU-GUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 50414 0.67 0.64959
Target:  5'- gUCGgCgUCGCGGaCCACagcgaACGCAUCGGu -3'
miRNA:   3'- -AGUgGgAGUGUC-GGUGg----UGUGUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 2125 0.67 0.64959
Target:  5'- cCGCCCgucugggaACAGUCGCgcaACGCAUCGGc -3'
miRNA:   3'- aGUGGGag------UGUCGGUGg--UGUGUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 38069 0.68 0.638476
Target:  5'- cCGCCCguUC-CuGCCGCCGCAcCAUUGGg -3'
miRNA:   3'- aGUGGG--AGuGuCGGUGGUGU-GUAGUC- -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.