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
22603 3' -56.9 NC_005091.1 + 56049 0.66 0.651959
Target:  5'- uGUCGAGCGUCuUGCGC-AGCaa-ACGGc -3'
miRNA:   3'- -UAGCUCGUAG-ACGUGcUCGcggUGCC- -5'
22603 3' -56.9 NC_005091.1 + 21699 0.66 0.630172
Target:  5'- gGUCGGGCGUUUGCGuCGucuGCGUauaGCGc -3'
miRNA:   3'- -UAGCUCGUAGACGU-GCu--CGCGg--UGCc -5'
22603 3' -56.9 NC_005091.1 + 30518 0.66 0.608392
Target:  5'- -gCGGcGCGcUCUGCgucAUGAGCaucGCCACGGa -3'
miRNA:   3'- uaGCU-CGU-AGACG---UGCUCG---CGGUGCC- -5'
22603 3' -56.9 NC_005091.1 + 31271 0.67 0.575894
Target:  5'- cAUCGgcGGCAUgucgUUGCAgGAGCGCUuccaaGCGGu -3'
miRNA:   3'- -UAGC--UCGUA----GACGUgCUCGCGG-----UGCC- -5'
22603 3' -56.9 NC_005091.1 + 718 0.67 0.575894
Target:  5'- -cCGGGCugCUGCGugagguCGAGCGCCAgUGGa -3'
miRNA:   3'- uaGCUCGuaGACGU------GCUCGCGGU-GCC- -5'
22603 3' -56.9 NC_005091.1 + 31785 0.67 0.565141
Target:  5'- -aCGAGCAggCcGCcgACGAGCGCgACGa -3'
miRNA:   3'- uaGCUCGUa-GaCG--UGCUCGCGgUGCc -5'
22603 3' -56.9 NC_005091.1 + 19873 0.68 0.53323
Target:  5'- cGUCGGcaaucGCAUCacgcuCAUGGGCGCUGCGGa -3'
miRNA:   3'- -UAGCU-----CGUAGac---GUGCUCGCGGUGCC- -5'
22603 3' -56.9 NC_005091.1 + 45284 0.68 0.522733
Target:  5'- gAUCGAGaaggcgGUCggGCACGAGUauuuGCCGCGa -3'
miRNA:   3'- -UAGCUCg-----UAGa-CGUGCUCG----CGGUGCc -5'
22603 3' -56.9 NC_005091.1 + 57434 0.68 0.516473
Target:  5'- aGUCGGGCGUUccuaucaugggGCugauuuccauucaagGCGuGCGCCACGGc -3'
miRNA:   3'- -UAGCUCGUAGa----------CG---------------UGCuCGCGGUGCC- -5'
22603 3' -56.9 NC_005091.1 + 40 0.68 0.516473
Target:  5'- aGUCGGGCGUUccuaucaugggGCugauuuccauucaagGCGuGCGCCACGGc -3'
miRNA:   3'- -UAGCUCGUAGa----------CG---------------UGCuCGCGGUGCC- -5'
22603 3' -56.9 NC_005091.1 + 28428 0.68 0.513354
Target:  5'- gGUCGAGCAUCgUGCuggcgacggccaguuCGAGCGaCgGCGa -3'
miRNA:   3'- -UAGCUCGUAG-ACGu--------------GCUCGC-GgUGCc -5'
22603 3' -56.9 NC_005091.1 + 51577 0.68 0.512316
Target:  5'- uGUCGuGCGUCgcgugacggGCGCGcagaAGCGCggCACGGg -3'
miRNA:   3'- -UAGCuCGUAGa--------CGUGC----UCGCG--GUGCC- -5'
22603 3' -56.9 NC_005091.1 + 23744 0.68 0.491748
Target:  5'- uAUCGAGCAgcuUCUGCAUcucAGCGaCCAUGc -3'
miRNA:   3'- -UAGCUCGU---AGACGUGc--UCGC-GGUGCc -5'
22603 3' -56.9 NC_005091.1 + 1408 0.69 0.461638
Target:  5'- -aUGGGCGgcaUGC-CGAGCGCCAaGGa -3'
miRNA:   3'- uaGCUCGUag-ACGuGCUCGCGGUgCC- -5'
22603 3' -56.9 NC_005091.1 + 18129 0.69 0.461638
Target:  5'- gAUCGAGaacaCGUCggucgGCGCGAGCuUCGCGGc -3'
miRNA:   3'- -UAGCUC----GUAGa----CGUGCUCGcGGUGCC- -5'
22603 3' -56.9 NC_005091.1 + 11325 0.69 0.455733
Target:  5'- uGUUGAGCggCUgccgcguucgacugcGCAUGuGCGUCACGGa -3'
miRNA:   3'- -UAGCUCGuaGA---------------CGUGCuCGCGGUGCC- -5'
22603 3' -56.9 NC_005091.1 + 26143 0.69 0.43253
Target:  5'- uGUCGuGGUAUCaGCGCGuGCGCgGCGa -3'
miRNA:   3'- -UAGC-UCGUAGaCGUGCuCGCGgUGCc -5'
22603 3' -56.9 NC_005091.1 + 9068 0.7 0.377682
Target:  5'- -gCGGGCuuuUCUGUACGAcGCGCuCGcCGGg -3'
miRNA:   3'- uaGCUCGu--AGACGUGCU-CGCG-GU-GCC- -5'
22603 3' -56.9 NC_005091.1 + 36300 0.72 0.312177
Target:  5'- --aGAcGCAa-UGCGCGAGCGUCGCGGc -3'
miRNA:   3'- uagCU-CGUagACGUGCUCGCGGUGCC- -5'
22603 3' -56.9 NC_005091.1 + 48714 0.75 0.197126
Target:  5'- -gCG-GCA-CUGCACGAGCGaCACGGa -3'
miRNA:   3'- uaGCuCGUaGACGUGCUCGCgGUGCC- -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.