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 + 21610 0.69 0.528589
Target:  5'- cCGCCCUCACcuGCUGCaCACAgGUgGGg -3'
miRNA:   3'- aGUGGGAGUGu-CGGUG-GUGUgUAgUC- -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 + 13498 0.66 0.715542
Target:  5'- -gGCCUUCGCAucCCGCCACAacccCGUCAa -3'
miRNA:   3'- agUGGGAGUGUc-GGUGGUGU----GUAGUc -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 + 22369 0.68 0.638476
Target:  5'- gUCGCCgUCGCAGCC-CUGCagaGCAUgGGc -3'
miRNA:   3'- -AGUGGgAGUGUCGGuGGUG---UGUAgUC- -5'
19684 3' -54.7 NC_004686.1 + 22330 0.83 0.077178
Target:  5'- cUCGCCCUCGCGGCCGgCCuuCGCGUCAc -3'
miRNA:   3'- -AGUGGGAGUGUCGGU-GGu-GUGUAGUc -5'
19684 3' -54.7 NC_004686.1 + 27034 0.72 0.371021
Target:  5'- aCACCCccaCAUAGCCAucaauCCACGgAUCAGa -3'
miRNA:   3'- aGUGGGa--GUGUCGGU-----GGUGUgUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 38745 0.7 0.465963
Target:  5'- aCACCUcgCGCGGCUGCaCAC-CGUCAGa -3'
miRNA:   3'- aGUGGGa-GUGUCGGUG-GUGuGUAGUC- -5'
19684 3' -54.7 NC_004686.1 + 44864 0.7 0.496832
Target:  5'- aUCGCCC-CACuuGCCGCCuuCACuccaGUCAGg -3'
miRNA:   3'- -AGUGGGaGUGu-CGGUGGu-GUG----UAGUC- -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 + 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 + 55287 0.69 0.550171
Target:  5'- aCACCC-CACguuuugccGGCCuGCCGCGCAaugcUCAGg -3'
miRNA:   3'- aGUGGGaGUG--------UCGG-UGGUGUGU----AGUC- -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 + 38315 0.68 0.58302
Target:  5'- aCACCCggccacucCACAuCCGCCGCAC-UCGGc -3'
miRNA:   3'- aGUGGGa-------GUGUcGGUGGUGUGuAGUC- -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 + 49177 0.67 0.687188
Target:  5'- aCAUCCuUCGCGgcggcuuccucgaacGCCACCACACcaccagccgAUCGGa -3'
miRNA:   3'- aGUGGG-AGUGU---------------CGGUGGUGUG---------UAGUC- -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 + 39322 0.68 0.627357
Target:  5'- -aGCCCUCAauaguguugcCGGCCGCCaACGCAaCAc -3'
miRNA:   3'- agUGGGAGU----------GUCGGUGG-UGUGUaGUc -5'
19684 3' -54.7 NC_004686.1 + 42115 0.68 0.638476
Target:  5'- gUCACCgucUUCGCGGuacuCCACCACACAcuuaUCAa -3'
miRNA:   3'- -AGUGG---GAGUGUC----GGUGGUGUGU----AGUc -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.