miRNA display CGI


Results 1 - 20 of 28 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
12227 3' -54.1 NC_003309.1 + 18753 0.65 0.788695
Target:  5'- cCGGCGGCGAuagucggcgccuugUCGAGCgugaUCGucucGCCgGCu -3'
miRNA:   3'- cGUCGUCGCU--------------AGCUCG----AGCu---UGGaCG- -5'
12227 3' -54.1 NC_003309.1 + 8533 0.66 0.781699
Target:  5'- cCGGCGGCGGcaCGAGCUuCGGcgcACC-GCu -3'
miRNA:   3'- cGUCGUCGCUa-GCUCGA-GCU---UGGaCG- -5'
12227 3' -54.1 NC_003309.1 + 23455 0.66 0.761295
Target:  5'- uGCGGCcgaucguaaCGAUCGAGCaggucgcccaaUCGAGCC-GCu -3'
miRNA:   3'- -CGUCGuc-------GCUAGCUCG-----------AGCUUGGaCG- -5'
12227 3' -54.1 NC_003309.1 + 52425 0.66 0.749837
Target:  5'- -uGGCgGGCGAucacccuguUCGAGCUUGGcgcaaucAUCUGCg -3'
miRNA:   3'- cgUCG-UCGCU---------AGCUCGAGCU-------UGGACG- -5'
12227 3' -54.1 NC_003309.1 + 32430 0.67 0.718959
Target:  5'- aCAGCAGCcaagCGAGagUCGAaggaaugcACCUGCc -3'
miRNA:   3'- cGUCGUCGcua-GCUCg-AGCU--------UGGACG- -5'
12227 3' -54.1 NC_003309.1 + 48600 0.67 0.686242
Target:  5'- aGCaAGCAGCGGUaugucgugGGGCgCGAGCCUuCg -3'
miRNA:   3'- -CG-UCGUCGCUAg-------CUCGaGCUUGGAcG- -5'
12227 3' -54.1 NC_003309.1 + 10723 0.67 0.686242
Target:  5'- cGCgAGCgcgAGCGAagccUCGGcgcGCUCGAGcuCCUGCu -3'
miRNA:   3'- -CG-UCG---UCGCU----AGCU---CGAGCUU--GGACG- -5'
12227 3' -54.1 NC_003309.1 + 4616 0.67 0.686242
Target:  5'- gGCAGCGauGCGAUUGAuuGCU---GCCUGUg -3'
miRNA:   3'- -CGUCGU--CGCUAGCU--CGAgcuUGGACG- -5'
12227 3' -54.1 NC_003309.1 + 43971 0.68 0.679632
Target:  5'- uGCAGCGGuCGcgcacgcucucgggcAUCGGGUUCG-GCUUGUg -3'
miRNA:   3'- -CGUCGUC-GC---------------UAGCUCGAGCuUGGACG- -5'
12227 3' -54.1 NC_003309.1 + 9528 0.68 0.664147
Target:  5'- uGCGcGCcGCG-UCGAGCgcgCGcaccguGACCUGCa -3'
miRNA:   3'- -CGU-CGuCGCuAGCUCGa--GC------UUGGACG- -5'
12227 3' -54.1 NC_003309.1 + 22456 0.68 0.653047
Target:  5'- uGC-GCGGCGAUCGcacgcugccGGCgUCGAGCgCgGCg -3'
miRNA:   3'- -CGuCGUCGCUAGC---------UCG-AGCUUG-GaCG- -5'
12227 3' -54.1 NC_003309.1 + 34545 0.68 0.641928
Target:  5'- cGCgAGCAGCGuagCGAGCacccgUCGAugUggGCg -3'
miRNA:   3'- -CG-UCGUCGCua-GCUCG-----AGCUugGa-CG- -5'
12227 3' -54.1 NC_003309.1 + 36315 0.68 0.641928
Target:  5'- aGCAGCAGaUGAagGAgcuGCUCGcACCcGCa -3'
miRNA:   3'- -CGUCGUC-GCUagCU---CGAGCuUGGaCG- -5'
12227 3' -54.1 NC_003309.1 + 10471 0.68 0.6308
Target:  5'- cGCGcGCAuGCcg-CGAGUUCG-GCCUGCg -3'
miRNA:   3'- -CGU-CGU-CGcuaGCUCGAGCuUGGACG- -5'
12227 3' -54.1 NC_003309.1 + 21754 0.68 0.619673
Target:  5'- --cGCAGgCGugcagCGAGCUCG-AUCUGCu -3'
miRNA:   3'- cguCGUC-GCua---GCUCGAGCuUGGACG- -5'
12227 3' -54.1 NC_003309.1 + 40193 0.69 0.608557
Target:  5'- cGCAGCAGCGGaccUCGAagucaGCgcaaacgCGAGCCg-- -3'
miRNA:   3'- -CGUCGUCGCU---AGCU-----CGa------GCUUGGacg -5'
12227 3' -54.1 NC_003309.1 + 12024 0.69 0.597463
Target:  5'- cGCAGUggacGCGAUCGu-CUCGucgaaAGCCUGCu -3'
miRNA:   3'- -CGUCGu---CGCUAGCucGAGC-----UUGGACG- -5'
12227 3' -54.1 NC_003309.1 + 11763 0.69 0.597463
Target:  5'- gGCGcGCccGGCGAUC-AGCcccgccaugCGGACCUGCg -3'
miRNA:   3'- -CGU-CG--UCGCUAGcUCGa--------GCUUGGACG- -5'
12227 3' -54.1 NC_003309.1 + 38253 0.69 0.575372
Target:  5'- aGCAcCAGCGAuugcaaaaaUCGAGC-CGAccGCCUGa -3'
miRNA:   3'- -CGUcGUCGCU---------AGCUCGaGCU--UGGACg -5'
12227 3' -54.1 NC_003309.1 + 37228 0.69 0.574272
Target:  5'- aCAGCAGCGcGUCGAGgaCGAgguaaaggcgaacGCC-GCg -3'
miRNA:   3'- cGUCGUCGC-UAGCUCgaGCU-------------UGGaCG- -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.