miRNA display CGI


Results 1 - 20 of 86 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
28011 5' -56.6 NC_005887.1 + 8404 0.66 0.581593
Target:  5'- -aCGcgACGUGCucGCCGAGCGccguCGGCa -3'
miRNA:   3'- uaGCugUGCACG--UGGCUCGUu---GCCGc -5'
28011 5' -56.6 NC_005887.1 + 17297 0.66 0.581593
Target:  5'- uUCGGCcaGCG-GCACUGcGGCAugGGUu -3'
miRNA:   3'- uAGCUG--UGCaCGUGGC-UCGUugCCGc -5'
28011 5' -56.6 NC_005887.1 + 13773 0.66 0.581593
Target:  5'- cGUCGAcCGCGUccgcGCAgCGGGCGGCGaCGc -3'
miRNA:   3'- -UAGCU-GUGCA----CGUgGCUCGUUGCcGC- -5'
28011 5' -56.6 NC_005887.1 + 31300 0.66 0.581593
Target:  5'- cUCGAC-CG-GCAUCGGcGCAcCGGUGg -3'
miRNA:   3'- uAGCUGuGCaCGUGGCU-CGUuGCCGC- -5'
28011 5' -56.6 NC_005887.1 + 33962 0.66 0.581593
Target:  5'- -aCGuCGCGUGCGgcguCCGucAGCAcCGGCGc -3'
miRNA:   3'- uaGCuGUGCACGU----GGC--UCGUuGCCGC- -5'
28011 5' -56.6 NC_005887.1 + 14670 0.66 0.574975
Target:  5'- -aCGGCACGUGaugcagacgaucaaGCCGcGCGcGCGGCa -3'
miRNA:   3'- uaGCUGUGCACg-------------UGGCuCGU-UGCCGc -5'
28011 5' -56.6 NC_005887.1 + 9392 0.66 0.574975
Target:  5'- gAUCGGCGCGgaaugggaauaccaGCACuCGGGCuauggAACGGUGc -3'
miRNA:   3'- -UAGCUGUGCa-------------CGUG-GCUCG-----UUGCCGC- -5'
28011 5' -56.6 NC_005887.1 + 11890 0.66 0.570572
Target:  5'- uUCGGCA---GCGCCG-GCAacuucACGGCGg -3'
miRNA:   3'- uAGCUGUgcaCGUGGCuCGU-----UGCCGC- -5'
28011 5' -56.6 NC_005887.1 + 6287 0.66 0.570572
Target:  5'- cAUCGACgGCGUGCG-CGAGCGcgucgaGGCc -3'
miRNA:   3'- -UAGCUG-UGCACGUgGCUCGUug----CCGc -5'
28011 5' -56.6 NC_005887.1 + 28281 0.66 0.570572
Target:  5'- cAUCGGCACGccgaGCGCgCGcAGCGucgUGGCGa -3'
miRNA:   3'- -UAGCUGUGCa---CGUG-GC-UCGUu--GCCGC- -5'
28011 5' -56.6 NC_005887.1 + 35667 0.66 0.570572
Target:  5'- uGUCGACAUacaGCAgCGcGCGAuCGGCGg -3'
miRNA:   3'- -UAGCUGUGca-CGUgGCuCGUU-GCCGC- -5'
28011 5' -56.6 NC_005887.1 + 32142 0.66 0.570572
Target:  5'- -cCGGCGCGgGCAUCGAcGCGAC-GCa -3'
miRNA:   3'- uaGCUGUGCaCGUGGCU-CGUUGcCGc -5'
28011 5' -56.6 NC_005887.1 + 794 0.66 0.569472
Target:  5'- cUCGGCgcuggcugacuucGCGUGCgcGCCGAGCGccucGCGGa- -3'
miRNA:   3'- uAGCUG-------------UGCACG--UGGCUCGU----UGCCgc -5'
28011 5' -56.6 NC_005887.1 + 8954 0.66 0.559602
Target:  5'- -cCGACACGaUGUACCu-GUuucACGGCGg -3'
miRNA:   3'- uaGCUGUGC-ACGUGGcuCGu--UGCCGC- -5'
28011 5' -56.6 NC_005887.1 + 19069 0.66 0.559602
Target:  5'- uUCGGCGCGgGCugCG-GCAACcGCc -3'
miRNA:   3'- uAGCUGUGCaCGugGCuCGUUGcCGc -5'
28011 5' -56.6 NC_005887.1 + 32232 0.66 0.559602
Target:  5'- cGUCG-UACGUGCAgCCGAuCAGCuGGCc -3'
miRNA:   3'- -UAGCuGUGCACGU-GGCUcGUUG-CCGc -5'
28011 5' -56.6 NC_005887.1 + 899 0.66 0.558508
Target:  5'- cUCG-CGCGgcGUGCCGAGCAGCgcauagcccacgaGGCGc -3'
miRNA:   3'- uAGCuGUGCa-CGUGGCUCGUUG-------------CCGC- -5'
28011 5' -56.6 NC_005887.1 + 14140 0.66 0.537848
Target:  5'- gAUCGA--UGUGC-CCGAGCcGACGGUc -3'
miRNA:   3'- -UAGCUguGCACGuGGCUCG-UUGCCGc -5'
28011 5' -56.6 NC_005887.1 + 22236 0.66 0.537848
Target:  5'- gAUCGuCGCGUGguUCacgaucAGCGACGGUGg -3'
miRNA:   3'- -UAGCuGUGCACguGGc-----UCGUUGCCGC- -5'
28011 5' -56.6 NC_005887.1 + 16814 0.66 0.537848
Target:  5'- -aCGA-ACGcGCACCGcuCGGCGGCGa -3'
miRNA:   3'- uaGCUgUGCaCGUGGCucGUUGCCGC- -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.