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 + 12503 1.08 0.000424
Target:  5'- gAGGGAGCACUACAGCAGCCUCCACCGc -3'
miRNA:   3'- -UCCCUCGUGAUGUCGUCGGAGGUGGC- -5'
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 + 24423 0.67 0.406434
Target:  5'- cGGuGGGCAcCUACGGCGGCaUCaACCGc -3'
miRNA:   3'- uCC-CUCGU-GAUGUCGUCGgAGgUGGC- -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 + 31926 0.67 0.434666
Target:  5'- cGGGAGCA--GCAcccGguGCCUUCAUCa -3'
miRNA:   3'- uCCCUCGUgaUGU---CguCGGAGGUGGc -5'
11539 3' -58.8 NC_003085.1 + 30759 0.66 0.463006
Target:  5'- cAGGGcauggcaGGCAgaGCAGCGcGaCCUCgACCGg -3'
miRNA:   3'- -UCCC-------UCGUgaUGUCGU-C-GGAGgUGGC- -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 + 30654 0.66 0.474007
Target:  5'- uGGcGAGuCGCUGCGGCAgggcgcucugcGCCUCgCAUUGg -3'
miRNA:   3'- uCC-CUC-GUGAUGUCGU-----------CGGAG-GUGGC- -5'
11539 3' -58.8 NC_003085.1 + 30043 0.66 0.484121
Target:  5'- cAGGGccAGCACaaguUGCAGCAGgC-CCagGCCGg -3'
miRNA:   3'- -UCCC--UCGUG----AUGUCGUCgGaGG--UGGC- -5'
11539 3' -58.8 NC_003085.1 + 48893 0.68 0.370636
Target:  5'- -cGGAGCAUUGCccgcCAGCCgcgCCGCCu -3'
miRNA:   3'- ucCCUCGUGAUGuc--GUCGGa--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 + 23695 0.73 0.172671
Target:  5'- cGGGccCGC-GCAGCAGCCUCCuCCGu -3'
miRNA:   3'- uCCCucGUGaUGUCGUCGGAGGuGGC- -5'
11539 3' -58.8 NC_003085.1 + 30353 0.71 0.213789
Target:  5'- cGGGGcGCACUGCGGCGucuagcaucccGCCcgggCCAUCGg -3'
miRNA:   3'- -UCCCuCGUGAUGUCGU-----------CGGa---GGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 23879 0.71 0.225306
Target:  5'- cGGGGcgugAGCGaacgGCAGCAGCCgUCCACgCGc -3'
miRNA:   3'- -UCCC----UCGUga--UGUCGUCGG-AGGUG-GC- -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 + 25365 0.69 0.290941
Target:  5'- cGGugacGGGCACgccgACGGCGGgCUUCACCGu -3'
miRNA:   3'- uCC----CUCGUGa---UGUCGUCgGAGGUGGC- -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 + 11390 0.69 0.313355
Target:  5'- gGGuGGAGCGCUACcGcCGGCUgacgcaCCGCCGc -3'
miRNA:   3'- -UC-CCUCGUGAUGuC-GUCGGa-----GGUGGC- -5'
11539 3' -58.8 NC_003085.1 + 45034 0.68 0.337053
Target:  5'- cAGGGAuGCuCUGcCAGUcgccAGCCUCCuccGCCGg -3'
miRNA:   3'- -UCCCU-CGuGAU-GUCG----UCGGAGG---UGGC- -5'
11539 3' -58.8 NC_003085.1 + 5701 0.83 0.032195
Target:  5'- aGGGcGAGCGCUcCAGCAGCCcgUCCACCa -3'
miRNA:   3'- -UCC-CUCGUGAuGUCGUCGG--AGGUGGc -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.