miRNA display CGI


Results 1 - 20 of 20 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
1360 5' -63 NC_001335.1 + 5791 0.66 0.325233
Target:  5'- gCCCGCuGGCCACgcagauccucaacguGGCugacgacaccgucuGGCGUCCAuGAGc -3'
miRNA:   3'- aGGGUG-CCGGUG---------------CCG--------------CCGCAGGU-CUU- -5'
1360 5' -63 NC_001335.1 + 1964 0.66 0.32447
Target:  5'- --gCGCaGauCCACGGCGGCGUCCuGGu -3'
miRNA:   3'- aggGUGcC--GGUGCCGCCGCAGGuCUu -5'
1360 5' -63 NC_001335.1 + 44500 0.66 0.316919
Target:  5'- gCCCuacgaagguAUGGCCgGCGGCGG-GUUCAGGu -3'
miRNA:   3'- aGGG---------UGCCGG-UGCCGCCgCAGGUCUu -5'
1360 5' -63 NC_001335.1 + 36806 0.66 0.302216
Target:  5'- -aCgACGGCC-CGGuUGGUGUCCAcGAGg -3'
miRNA:   3'- agGgUGCCGGuGCC-GCCGCAGGU-CUU- -5'
1360 5' -63 NC_001335.1 + 10753 0.66 0.302216
Target:  5'- uUCgCCGCGuGCUA-GGCGGCGU-CGGAGc -3'
miRNA:   3'- -AG-GGUGC-CGGUgCCGCCGCAgGUCUU- -5'
1360 5' -63 NC_001335.1 + 5675 0.67 0.281156
Target:  5'- gCCUGCcGCUACGGcCGGCGcaCCGGAGa -3'
miRNA:   3'- aGGGUGcCGGUGCC-GCCGCa-GGUCUU- -5'
1360 5' -63 NC_001335.1 + 46460 0.67 0.281156
Target:  5'- uUCCUugACGGCCugGGCGaagccuGCGaUCCAcGAc -3'
miRNA:   3'- -AGGG--UGCCGGugCCGC------CGC-AGGU-CUu -5'
1360 5' -63 NC_001335.1 + 41550 0.67 0.281156
Target:  5'- aCCCcCGGUCugGGCcGCGcuugaCCAGAAa -3'
miRNA:   3'- aGGGuGCCGGugCCGcCGCa----GGUCUU- -5'
1360 5' -63 NC_001335.1 + 45039 0.67 0.261278
Target:  5'- aUCCCACGcCCagugggagACGGCcacGGCGUCgGGGAa -3'
miRNA:   3'- -AGGGUGCcGG--------UGCCG---CCGCAGgUCUU- -5'
1360 5' -63 NC_001335.1 + 33915 0.67 0.254911
Target:  5'- aCCU-CGGCCACaucaaccuGGCGGCGUUCGuGAc -3'
miRNA:   3'- aGGGuGCCGGUG--------CCGCCGCAGGU-CUu -5'
1360 5' -63 NC_001335.1 + 33143 0.68 0.24256
Target:  5'- aUCCU-CGGCCuCGuaGGCGUCUGGAu -3'
miRNA:   3'- -AGGGuGCCGGuGCcgCCGCAGGUCUu -5'
1360 5' -63 NC_001335.1 + 3556 0.69 0.198069
Target:  5'- gUUUC-CGGCUccgACGGCuGCGUCCAGAGc -3'
miRNA:   3'- -AGGGuGCCGG---UGCCGcCGCAGGUCUU- -5'
1360 5' -63 NC_001335.1 + 25201 0.7 0.178608
Target:  5'- gCCCGCGaGCCA-GGCuucGGCGUCCAu-- -3'
miRNA:   3'- aGGGUGC-CGGUgCCG---CCGCAGGUcuu -5'
1360 5' -63 NC_001335.1 + 39814 0.71 0.13722
Target:  5'- gUCUCACGGucguCCACGGCGGCGcUCgCGGc- -3'
miRNA:   3'- -AGGGUGCC----GGUGCCGCCGC-AG-GUCuu -5'
1360 5' -63 NC_001335.1 + 32692 0.71 0.133604
Target:  5'- aUCCgCGcCGGCCaACGGCGGCGgcgguggCCAGc- -3'
miRNA:   3'- -AGG-GU-GCCGG-UGCCGCCGCa------GGUCuu -5'
1360 5' -63 NC_001335.1 + 42045 0.72 0.123276
Target:  5'- gUCCCACGccuucGCCAgGGUGGCGUCguGc- -3'
miRNA:   3'- -AGGGUGC-----CGGUgCCGCCGCAGguCuu -5'
1360 5' -63 NC_001335.1 + 33567 0.74 0.081927
Target:  5'- cUCCCACaGgCACGGUGGCGaagaugCCAGGAg -3'
miRNA:   3'- -AGGGUGcCgGUGCCGCCGCa-----GGUCUU- -5'
1360 5' -63 NC_001335.1 + 36495 0.76 0.062109
Target:  5'- aCgCugGGCUACGGCGGCaaCCAGAAg -3'
miRNA:   3'- aGgGugCCGGUGCCGCCGcaGGUCUU- -5'
1360 5' -63 NC_001335.1 + 36621 0.83 0.018454
Target:  5'- aCCCACGGCCACcguGGUGGgGUCCGGGu -3'
miRNA:   3'- aGGGUGCCGGUG---CCGCCgCAGGUCUu -5'
1360 5' -63 NC_001335.1 + 18899 1.05 0.000305
Target:  5'- cUCCCACGGCCACGGCGGCGUCCAGAAc -3'
miRNA:   3'- -AGGGUGCCGGUGCCGCCGCAGGUCUU- -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.