miRNA display CGI


Results 1 - 20 of 39 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
29264 3' -61.1 NC_006150.1 + 90749 0.65 0.789446
Target:  5'- gCGUGGgCCAcacaacggguugcuGCGgaGGCUGCuGUUGCGg -3'
miRNA:   3'- -GCACCgGGU--------------UGCg-UCGGCGuCGACGC- -5'
29264 3' -61.1 NC_006150.1 + 65175 0.66 0.783347
Target:  5'- --cGGCCCccAGCGCcacGGCCGCcgAGCUaGCc -3'
miRNA:   3'- gcaCCGGG--UUGCG---UCGGCG--UCGA-CGc -5'
29264 3' -61.1 NC_006150.1 + 62691 0.66 0.783347
Target:  5'- cCGUGGCCCGAauCGGCUGUggguuugaucgaAGC-GCGc -3'
miRNA:   3'- -GCACCGGGUUgcGUCGGCG------------UCGaCGC- -5'
29264 3' -61.1 NC_006150.1 + 143527 0.66 0.778071
Target:  5'- uCGUGGCCUGagguuuuuuauuuuuGCgGCGGCgCGCcAGCaGCGg -3'
miRNA:   3'- -GCACCGGGU---------------UG-CGUCG-GCG-UCGaCGC- -5'
29264 3' -61.1 NC_006150.1 + 171507 0.66 0.774531
Target:  5'- -uUGGCaau-CGCAGCCGUAGCgGUa -3'
miRNA:   3'- gcACCGgguuGCGUCGGCGUCGaCGc -5'
29264 3' -61.1 NC_006150.1 + 70030 0.66 0.773642
Target:  5'- aCG-GGUCCGgcgugacgGCGCAgcGCCGCcacgagcgcuuccAGCUGCGc -3'
miRNA:   3'- -GCaCCGGGU--------UGCGU--CGGCG-------------UCGACGC- -5'
29264 3' -61.1 NC_006150.1 + 106138 0.66 0.7656
Target:  5'- uGUGGCCCuuUGCAGC-GUGGg-GCGg -3'
miRNA:   3'- gCACCGGGuuGCGUCGgCGUCgaCGC- -5'
29264 3' -61.1 NC_006150.1 + 133409 0.66 0.7656
Target:  5'- cCGUGGaaaCCgAGgGCGGCuCGCAGC-GCa -3'
miRNA:   3'- -GCACCg--GG-UUgCGUCG-GCGUCGaCGc -5'
29264 3' -61.1 NC_006150.1 + 88277 0.66 0.7656
Target:  5'- gCGUGcGCUCGGCuggGCGGCacggaaGCcuGGCUGCGa -3'
miRNA:   3'- -GCAC-CGGGUUG---CGUCGg-----CG--UCGACGC- -5'
29264 3' -61.1 NC_006150.1 + 132162 0.66 0.7656
Target:  5'- uCGUcGCCCAACa-GGCCGgcgugauaagaCAGCUGCGc -3'
miRNA:   3'- -GCAcCGGGUUGcgUCGGC-----------GUCGACGC- -5'
29264 3' -61.1 NC_006150.1 + 87817 0.66 0.7647
Target:  5'- --cGGCCUgccggagcucgguGGCGCAGuCCGCGGC-GCc -3'
miRNA:   3'- gcaCCGGG-------------UUGCGUC-GGCGUCGaCGc -5'
29264 3' -61.1 NC_006150.1 + 92790 0.66 0.756562
Target:  5'- gCGgugGGCCC-GCGCucUCGCAGCUcaGCGa -3'
miRNA:   3'- -GCa--CCGGGuUGCGucGGCGUCGA--CGC- -5'
29264 3' -61.1 NC_006150.1 + 71098 0.66 0.756562
Target:  5'- aCGgcgGGaCCUAGCugcuguagugGCGGCCGUGGCaGCGg -3'
miRNA:   3'- -GCa--CC-GGGUUG----------CGUCGGCGUCGaCGC- -5'
29264 3' -61.1 NC_006150.1 + 179820 0.66 0.747425
Target:  5'- --cGGCCaUGAUGCAGCCGguGUcucacaaacaUGCGc -3'
miRNA:   3'- gcaCCGG-GUUGCGUCGGCguCG----------ACGC- -5'
29264 3' -61.1 NC_006150.1 + 181257 0.66 0.747425
Target:  5'- uCGUGGUgCCGAgGCGGaCGCGGaggGCGg -3'
miRNA:   3'- -GCACCG-GGUUgCGUCgGCGUCga-CGC- -5'
29264 3' -61.1 NC_006150.1 + 76825 0.67 0.728885
Target:  5'- aGUGcGCCacucaUAGCGguGCCGCAGCa--- -3'
miRNA:   3'- gCAC-CGG-----GUUGCguCGGCGUCGacgc -5'
29264 3' -61.1 NC_006150.1 + 35949 0.67 0.719497
Target:  5'- -cUGGCCaCAcucugcugcacACGCAGCUgcucaGCAGCUGUc -3'
miRNA:   3'- gcACCGG-GU-----------UGCGUCGG-----CGUCGACGc -5'
29264 3' -61.1 NC_006150.1 + 36044 0.67 0.710043
Target:  5'- aGUGaGCUCGGCGUccuccAGCCGaGGCUGgGg -3'
miRNA:   3'- gCAC-CGGGUUGCG-----UCGGCgUCGACgC- -5'
29264 3' -61.1 NC_006150.1 + 90510 0.67 0.700529
Target:  5'- -cUGGCagcgCAACGCGGCCG-AGuCUGCa -3'
miRNA:   3'- gcACCGg---GUUGCGUCGGCgUC-GACGc -5'
29264 3' -61.1 NC_006150.1 + 50016 0.67 0.690963
Target:  5'- -aUGGCCC-ACGUGGacacaagucaUGCAGCUGUGg -3'
miRNA:   3'- gcACCGGGuUGCGUCg---------GCGUCGACGC- -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.