miRNA display CGI


Results 1 - 17 of 17 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
17144 3' -56.8 NC_004333.2 + 36280 0.66 0.593145
Target:  5'- -gGCaUUCGCacgaCCAAGUGCucGGGcuUGCGCc -3'
miRNA:   3'- agCG-AAGCGg---GGUUCACG--CCU--ACGUG- -5'
17144 3' -56.8 NC_004333.2 + 6688 0.66 0.593145
Target:  5'- cCGC--CGCUUCAcGUGCGGG-GCGCa -3'
miRNA:   3'- aGCGaaGCGGGGUuCACGCCUaCGUG- -5'
17144 3' -56.8 NC_004333.2 + 26527 0.66 0.593145
Target:  5'- -gGCg-CGCCgaCAGGUGCGGcgaacUGCACg -3'
miRNA:   3'- agCGaaGCGGg-GUUCACGCCu----ACGUG- -5'
17144 3' -56.8 NC_004333.2 + 18149 0.66 0.582118
Target:  5'- gCGCUcgcagagaaUCGCCCagAGGU-CGGAcUGCGCa -3'
miRNA:   3'- aGCGA---------AGCGGGg-UUCAcGCCU-ACGUG- -5'
17144 3' -56.8 NC_004333.2 + 9410 0.66 0.560199
Target:  5'- gUCGuCUUCGCugCCC---UGCGGGcUGCGCa -3'
miRNA:   3'- -AGC-GAAGCG--GGGuucACGCCU-ACGUG- -5'
17144 3' -56.8 NC_004333.2 + 43042 0.66 0.560199
Target:  5'- cCGC-UCGUCCgccggcgaGGGUGCGGGUugcaGCGCa -3'
miRNA:   3'- aGCGaAGCGGGg-------UUCACGCCUA----CGUG- -5'
17144 3' -56.8 NC_004333.2 + 16008 0.66 0.549324
Target:  5'- aCGUgacUUGCCCCGAuUGUGGcgGCGa -3'
miRNA:   3'- aGCGa--AGCGGGGUUcACGCCuaCGUg -5'
17144 3' -56.8 NC_004333.2 + 27180 0.66 0.538515
Target:  5'- aUGCgu-GCCCCcgAGGUGUGGcgGCAg -3'
miRNA:   3'- aGCGaagCGGGG--UUCACGCCuaCGUg -5'
17144 3' -56.8 NC_004333.2 + 18517 0.67 0.506558
Target:  5'- aCGCUgcagcggccuUCGCagccggcggcaaCCCGGGUGCGGcagccgGCGCg -3'
miRNA:   3'- aGCGA----------AGCG------------GGGUUCACGCCua----CGUG- -5'
17144 3' -56.8 NC_004333.2 + 43577 0.67 0.475437
Target:  5'- gUCGCgcgcUCGCCUCGAacGCGaGUGCGCg -3'
miRNA:   3'- -AGCGa---AGCGGGGUUcaCGCcUACGUG- -5'
17144 3' -56.8 NC_004333.2 + 25905 0.69 0.41626
Target:  5'- gCGCUUCGCCgCCc--UGCGcuUGCACg -3'
miRNA:   3'- aGCGAAGCGG-GGuucACGCcuACGUG- -5'
17144 3' -56.8 NC_004333.2 + 9445 0.69 0.40684
Target:  5'- cCGgUUCGCCguccugcgcaCCAGGcGCGGGUGcCGCa -3'
miRNA:   3'- aGCgAAGCGG----------GGUUCaCGCCUAC-GUG- -5'
17144 3' -56.8 NC_004333.2 + 38117 0.69 0.40684
Target:  5'- gUGCUUCGCaUCCAGGU-CGGG-GCGCc -3'
miRNA:   3'- aGCGAAGCG-GGGUUCAcGCCUaCGUG- -5'
17144 3' -56.8 NC_004333.2 + 13719 0.7 0.361809
Target:  5'- cUCGCgcaGCugCCCGAGUaccGCGcGAUGCACg -3'
miRNA:   3'- -AGCGaagCG--GGGUUCA---CGC-CUACGUG- -5'
17144 3' -56.8 NC_004333.2 + 25173 0.7 0.328359
Target:  5'- cUCGCcgUGCCCgGAGUGaCGGAUuGCuACg -3'
miRNA:   3'- -AGCGaaGCGGGgUUCAC-GCCUA-CG-UG- -5'
17144 3' -56.8 NC_004333.2 + 6766 0.77 0.115084
Target:  5'- gUCGCcaaugCGCCCCGcacgugaAGcgGCGGAUGCGCg -3'
miRNA:   3'- -AGCGaa---GCGGGGU-------UCa-CGCCUACGUG- -5'
17144 3' -56.8 NC_004333.2 + 13596 1.1 0.00046
Target:  5'- aUCGCUUCGCCCCAAGUGCGGAUGCACu -3'
miRNA:   3'- -AGCGAAGCGGGGUUCACGCCUACGUG- -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.