miRNA display CGI


Results 1 - 20 of 42 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
11539 3' -58.8 NC_003085.1 + 1458 0.68 0.376743
Target:  5'- aGGGGAGCGCaugACAccccaagucgccGCccgucaccgucgccAGCCUCgGCCGg -3'
miRNA:   3'- -UCCCUCGUGa--UGU------------CG--------------UCGGAGgUGGC- -5'
11539 3' -58.8 NC_003085.1 + 1527 0.69 0.329011
Target:  5'- uGGGGugucauGCGCUccccuucgucGgAGCAGCCUUCAUCGc -3'
miRNA:   3'- -UCCCu-----CGUGA----------UgUCGUCGGAGGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 1880 0.67 0.434666
Target:  5'- cAGGGGGCGCaccaguccCGGcCAGCCaacgggCCACCu -3'
miRNA:   3'- -UCCCUCGUGau------GUC-GUCGGa-----GGUGGc -5'
11539 3' -58.8 NC_003085.1 + 1938 0.67 0.425128
Target:  5'- uGGcGGaAGCAgaacgGCAGCGGCUucgCCACCGa -3'
miRNA:   3'- -UC-CC-UCGUga---UGUCGUCGGa--GGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 2457 0.72 0.180773
Target:  5'- aAGGGAGUAcCUGCGagagcucgcgcgccGCGGCCUCgCACUGc -3'
miRNA:   3'- -UCCCUCGU-GAUGU--------------CGUCGGAG-GUGGC- -5'
11539 3' -58.8 NC_003085.1 + 5701 0.83 0.032195
Target:  5'- aGGGcGAGCGCUcCAGCAGCCcgUCCACCa -3'
miRNA:   3'- -UCC-CUCGUGAuGUCGUCGG--AGGUGGc -5'
11539 3' -58.8 NC_003085.1 + 6927 0.66 0.464001
Target:  5'- cGGGuAGUGCUGC-GCGGCUUUCGCg- -3'
miRNA:   3'- uCCC-UCGUGAUGuCGUCGGAGGUGgc -5'
11539 3' -58.8 NC_003085.1 + 10426 0.66 0.464001
Target:  5'- gAGGGAGCGuCcGCGGU-GCCUCC-CgGg -3'
miRNA:   3'- -UCCCUCGU-GaUGUCGuCGGAGGuGgC- -5'
11539 3' -58.8 NC_003085.1 + 11390 0.69 0.313355
Target:  5'- gGGuGGAGCGCUACcGcCGGCUgacgcaCCGCCGc -3'
miRNA:   3'- -UC-CCUCGUGAUGuC-GUCGGa-----GGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 11617 0.7 0.283754
Target:  5'- aAGGG-GCugUGCAGgGGCUgCUACCa -3'
miRNA:   3'- -UCCCuCGugAUGUCgUCGGaGGUGGc -5'
11539 3' -58.8 NC_003085.1 + 12485 0.73 0.172671
Target:  5'- -cGGAGC---GCAGCGGCC-CCGCCGg -3'
miRNA:   3'- ucCCUCGugaUGUCGUCGGaGGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 12503 1.08 0.000424
Target:  5'- gAGGGAGCACUACAGCAGCCUCCACCGc -3'
miRNA:   3'- -UCCCUCGUGAUGUCGUCGGAGGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 14360 0.71 0.219483
Target:  5'- gAGGGcugcgcGGCGCUugacgGCAGCAGCCUggCCGCaCGu -3'
miRNA:   3'- -UCCC------UCGUGA-----UGUCGUCGGA--GGUG-GC- -5'
11539 3' -58.8 NC_003085.1 + 16017 0.7 0.269802
Target:  5'- gAGGGAGCGCcacCAGCcgAGCCUgucacaCGCCGu -3'
miRNA:   3'- -UCCCUCGUGau-GUCG--UCGGAg-----GUGGC- -5'
11539 3' -58.8 NC_003085.1 + 18728 0.69 0.305741
Target:  5'- cGGGAcGCGCcuuccugcGCAGCAuGCCgaagCCGCCGc -3'
miRNA:   3'- uCCCU-CGUGa-------UGUCGU-CGGa---GGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 19664 0.68 0.345237
Target:  5'- aAGGGcAGCAuCUACGGCGaCCUCCuggcgGCCc -3'
miRNA:   3'- -UCCC-UCGU-GAUGUCGUcGGAGG-----UGGc -5'
11539 3' -58.8 NC_003085.1 + 20116 0.66 0.464001
Target:  5'- cAGGaGGGCGCggGCGGCGGCaa-UGCCGu -3'
miRNA:   3'- -UCC-CUCGUGa-UGUCGUCGgagGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 20928 0.69 0.329011
Target:  5'- uGGGcGGCACcGCAGCGGCgagCUCggCGCCGg -3'
miRNA:   3'- uCCC-UCGUGaUGUCGUCG---GAG--GUGGC- -5'
11539 3' -58.8 NC_003085.1 + 21169 0.66 0.464001
Target:  5'- cGuGGAGgGCUACAGC-GCCgUCCucgacacccaACCGg -3'
miRNA:   3'- uC-CCUCgUGAUGUCGuCGG-AGG----------UGGC- -5'
11539 3' -58.8 NC_003085.1 + 22053 0.71 0.219483
Target:  5'- aAGGGAGCGCUGCcgGGCaccugcugAGCCaacggagCCACCc -3'
miRNA:   3'- -UCCCUCGUGAUG--UCG--------UCGGa------GGUGGc -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.