miRNA display CGI


Results 1 - 20 of 64 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
12211 3' -59.1 NC_003309.1 + 11987 0.85 0.027343
Target:  5'- cCGCGCGCGGCAgcCGCGGCGcgcGCCGCgUCGg -3'
miRNA:   3'- -GCGCGCGCUGU--GUGCCGU---UGGCG-AGC- -5'
12211 3' -59.1 NC_003309.1 + 11213 0.85 0.028137
Target:  5'- cCGCGCGCGACGCcuccugcuucguGC-GCAGCCGCUCGg -3'
miRNA:   3'- -GCGCGCGCUGUG------------UGcCGUUGGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 45881 0.82 0.049699
Target:  5'- uCGCGCGCGuugauCACGCGGCGACgGCcgUCGa -3'
miRNA:   3'- -GCGCGCGCu----GUGUGCCGUUGgCG--AGC- -5'
12211 3' -59.1 NC_003309.1 + 6749 0.75 0.134822
Target:  5'- gGCGCGCG-CAUACGGCcAACgUGCUUGa -3'
miRNA:   3'- gCGCGCGCuGUGUGCCG-UUG-GCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 19958 0.75 0.138501
Target:  5'- uGCGCGCGAUccgcuucgACGCGcGCGAUCGCUUc -3'
miRNA:   3'- gCGCGCGCUG--------UGUGC-CGUUGGCGAGc -5'
12211 3' -59.1 NC_003309.1 + 53246 0.75 0.146138
Target:  5'- uCGcCGCGUGACAguCACGGCAgAUCGCUUGc -3'
miRNA:   3'- -GC-GCGCGCUGU--GUGCCGU-UGGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 8531 0.74 0.158313
Target:  5'- gGCG-GCGGCACGagcuuCGGCGcACCGCUCa -3'
miRNA:   3'- gCGCgCGCUGUGU-----GCCGU-UGGCGAGc -5'
12211 3' -59.1 NC_003309.1 + 17748 0.74 0.175969
Target:  5'- uCGCGCGCGGCAgcucgaucCGauGCGAgCGCUCGu -3'
miRNA:   3'- -GCGCGCGCUGU--------GUgcCGUUgGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 10702 0.74 0.18065
Target:  5'- gGCGCGCucGAgcuccugcUGCGCGGCGGCCGuCUCGc -3'
miRNA:   3'- gCGCGCG--CU--------GUGUGCCGUUGGC-GAGC- -5'
12211 3' -59.1 NC_003309.1 + 44185 0.72 0.222193
Target:  5'- aCGCcCGCGGCGCGCu---GCCGCUCGg -3'
miRNA:   3'- -GCGcGCGCUGUGUGccguUGGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 13108 0.72 0.226191
Target:  5'- gCGCGCacgcccggcuGCGACACcacuGCGGCGcggaccacgaacucGCCGUUCGa -3'
miRNA:   3'- -GCGCG----------CGCUGUG----UGCCGU--------------UGGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 12622 0.72 0.227344
Target:  5'- uCGCGCGCGACcuGCuccgccuCGGCcguguugAugCGCUCGa -3'
miRNA:   3'- -GCGCGCGCUG--UGu------GCCG-------UugGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 23571 0.72 0.227923
Target:  5'- uCGCGCGCcccuuGAUcgACcGCAGCCGCUCGg -3'
miRNA:   3'- -GCGCGCG-----CUGugUGcCGUUGGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 40103 0.72 0.233778
Target:  5'- uCGCGCccaugcaauGCGGCACGCGGCccgguuGaaGCUCGa -3'
miRNA:   3'- -GCGCG---------CGCUGUGUGCCGu-----UggCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 22470 0.72 0.233778
Target:  5'- aCGCG-GCGGCaucguGCGCGGCGAUCGCa-- -3'
miRNA:   3'- -GCGCgCGCUG-----UGUGCCGUUGGCGagc -5'
12211 3' -59.1 NC_003309.1 + 31471 0.72 0.245866
Target:  5'- gGCGaaaGCGGC-CACGGCGcCCGCcCGa -3'
miRNA:   3'- gCGCg--CGCUGuGUGCCGUuGGCGaGC- -5'
12211 3' -59.1 NC_003309.1 + 9958 0.71 0.252103
Target:  5'- cCGCGCGCGAuagcauccgcgaCACcCGGCAACUcUUCGa -3'
miRNA:   3'- -GCGCGCGCU------------GUGuGCCGUUGGcGAGC- -5'
12211 3' -59.1 NC_003309.1 + 9694 0.71 0.264966
Target:  5'- uCGCGCGCGAUGCGCaGCAcguCGUUCu -3'
miRNA:   3'- -GCGCGCGCUGUGUGcCGUug-GCGAGc -5'
12211 3' -59.1 NC_003309.1 + 33171 0.71 0.264966
Target:  5'- uGCGCugacUGACGaccaACGGCAAgCGCUCGg -3'
miRNA:   3'- gCGCGc---GCUGUg---UGCCGUUgGCGAGC- -5'
12211 3' -59.1 NC_003309.1 + 22385 0.71 0.271595
Target:  5'- uGCGCGuCGAacgccCGCGCGGC--CUGCUCGu -3'
miRNA:   3'- gCGCGC-GCU-----GUGUGCCGuuGGCGAGC- -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.