miRNA display CGI


Results 1 - 20 of 24 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
11587 3' -62.1 NC_003085.1 + 23768 0.66 0.342072
Target:  5'- aCGGAggaggcugcuGCGCGGGccCGCUGCGUGgaCGCc -3'
miRNA:   3'- -GUCU----------CGUGCCCc-GCGGCGCACgaGUG- -5'
11587 3' -62.1 NC_003085.1 + 30319 0.66 0.33413
Target:  5'- -cGGGgGCuGGGCGCCGCGcaagGCcugCGCc -3'
miRNA:   3'- guCUCgUGcCCCGCGGCGCa---CGa--GUG- -5'
11587 3' -62.1 NC_003085.1 + 11774 0.66 0.326325
Target:  5'- --cGGUACGGcGGCGCCGC--GCUC-Cg -3'
miRNA:   3'- gucUCGUGCC-CCGCGGCGcaCGAGuG- -5'
11587 3' -62.1 NC_003085.1 + 16278 0.66 0.311122
Target:  5'- aGGAGCACGGcgaggaGCGCgGUcacgGCUCACc -3'
miRNA:   3'- gUCUCGUGCCc-----CGCGgCGca--CGAGUG- -5'
11587 3' -62.1 NC_003085.1 + 9188 0.66 0.310376
Target:  5'- gGGucGGCGCGGGuacuccuGCGCCcUGUGUUCGCc -3'
miRNA:   3'- gUC--UCGUGCCC-------CGCGGcGCACGAGUG- -5'
11587 3' -62.1 NC_003085.1 + 16977 0.66 0.303725
Target:  5'- gGGGGCugGGGuGCGagGUG-GCUCAUc -3'
miRNA:   3'- gUCUCGugCCC-CGCggCGCaCGAGUG- -5'
11587 3' -62.1 NC_003085.1 + 41469 0.67 0.289338
Target:  5'- uGGGGCGCGGGugaaguaccGCGCCaGCGcUGCcUACc -3'
miRNA:   3'- gUCUCGUGCCC---------CGCGG-CGC-ACGaGUG- -5'
11587 3' -62.1 NC_003085.1 + 28457 0.67 0.268769
Target:  5'- cCAGGGCGUGGauugaGGCGCUcaccggcuGCGUGCUgACg -3'
miRNA:   3'- -GUCUCGUGCC-----CCGCGG--------CGCACGAgUG- -5'
11587 3' -62.1 NC_003085.1 + 38677 0.67 0.268769
Target:  5'- -cGAGCACGGcGGUGCaUGCaacaagcguuGUGCUCGu -3'
miRNA:   3'- guCUCGUGCC-CCGCG-GCG----------CACGAGUg -5'
11587 3' -62.1 NC_003085.1 + 32893 0.68 0.253811
Target:  5'- uGGAGCAuCGGGGCcguccgccuucgacGUCGCGaaUGCggCACg -3'
miRNA:   3'- gUCUCGU-GCCCCG--------------CGGCGC--ACGa-GUG- -5'
11587 3' -62.1 NC_003085.1 + 48838 0.68 0.251911
Target:  5'- cCAGucGcCACGGGGCaacuCCGCGUggcgccugacgcgccGCUCACg -3'
miRNA:   3'- -GUCu-C-GUGCCCCGc---GGCGCA---------------CGAGUG- -5'
11587 3' -62.1 NC_003085.1 + 801 0.68 0.231191
Target:  5'- cCAGGcCACGGuGGaCGuCCGCGUGC-CGCc -3'
miRNA:   3'- -GUCUcGUGCC-CC-GC-GGCGCACGaGUG- -5'
11587 3' -62.1 NC_003085.1 + 15476 0.69 0.21412
Target:  5'- cCAGAcgcgGCGCaGGGGUGCCGUGUGagUgACa -3'
miRNA:   3'- -GUCU----CGUG-CCCCGCGGCGCACg-AgUG- -5'
11587 3' -62.1 NC_003085.1 + 26719 0.69 0.21412
Target:  5'- gCAGGGCggugACGGcgcGGCGCCG-GUGCugUCACu -3'
miRNA:   3'- -GUCUCG----UGCC---CCGCGGCgCACG--AGUG- -5'
11587 3' -62.1 NC_003085.1 + 49102 0.69 0.208674
Target:  5'- aGGGGCcccucgugcugACGGGGCcCCG-GUGCUCAg -3'
miRNA:   3'- gUCUCG-----------UGCCCCGcGGCgCACGAGUg -5'
11587 3' -62.1 NC_003085.1 + 24065 0.69 0.193051
Target:  5'- --aAGCGCGGGaaGCCGCG-GCUCGu -3'
miRNA:   3'- gucUCGUGCCCcgCGGCGCaCGAGUg -5'
11587 3' -62.1 NC_003085.1 + 4120 0.7 0.188075
Target:  5'- uCAGcgaaAGCAUGGGGCGCgGUG-GCgucgUCACg -3'
miRNA:   3'- -GUC----UCGUGCCCCGCGgCGCaCG----AGUG- -5'
11587 3' -62.1 NC_003085.1 + 10650 0.7 0.183213
Target:  5'- gCAGAgGCAgccaaaguccuCGGGGCuGCCgGCGUGCUggaCACa -3'
miRNA:   3'- -GUCU-CGU-----------GCCCCG-CGG-CGCACGA---GUG- -5'
11587 3' -62.1 NC_003085.1 + 1247 0.7 0.183213
Target:  5'- gCAGAGCagcGCGuGGGCuCCGCccuuGUGCUUGCa -3'
miRNA:   3'- -GUCUCG---UGC-CCCGcGGCG----CACGAGUG- -5'
11587 3' -62.1 NC_003085.1 + 43426 0.72 0.123984
Target:  5'- aCAGAGCGucgcgucgucgugaGGGGUGCCGCGcUGCUgaGCg -3'
miRNA:   3'- -GUCUCGUg-------------CCCCGCGGCGC-ACGAg-UG- -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.