miRNA display CGI


Results 1 - 20 of 22 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
26216 5' -53 NC_005342.2 + 22055 0.66 0.790761
Target:  5'- -gCAAgcGCAGGGCGgCGAAGcgcGGCGCu -3'
miRNA:   3'- uaGUU--CGUCUUGCaGCUUCu--CCGCGc -5'
26216 5' -53 NC_005342.2 + 6859 0.66 0.780546
Target:  5'- cAUCGAGCGGAucGCGgCGAcAGcGGCGUc -3'
miRNA:   3'- -UAGUUCGUCU--UGCaGCU-UCuCCGCGc -5'
26216 5' -53 NC_005342.2 + 33101 0.66 0.759633
Target:  5'- gAUCGcGUAGAACGgCGAugccuGcGGCGCGg -3'
miRNA:   3'- -UAGUuCGUCUUGCaGCUu----CuCCGCGC- -5'
26216 5' -53 NC_005342.2 + 36228 0.67 0.727249
Target:  5'- cUCAAGguGAACGUCGGugccGGucGGCuGCc -3'
miRNA:   3'- uAGUUCguCUUGCAGCU----UCu-CCG-CGc -5'
26216 5' -53 NC_005342.2 + 28477 0.67 0.715128
Target:  5'- -cCGAGCGccGCGUCGAccgcgcgggucgcGGcGGCGCGg -3'
miRNA:   3'- uaGUUCGUcuUGCAGCU-------------UCuCCGCGC- -5'
26216 5' -53 NC_005342.2 + 41425 0.67 0.70513
Target:  5'- uUCGGGCGGcACGgcgcgaucaaCGAGGAgaucGGCGCGg -3'
miRNA:   3'- uAGUUCGUCuUGCa---------GCUUCU----CCGCGC- -5'
26216 5' -53 NC_005342.2 + 47005 0.67 0.70513
Target:  5'- -aUggGCAGAAgG-CGAAGuGcGCGCGa -3'
miRNA:   3'- uaGuuCGUCUUgCaGCUUCuC-CGCGC- -5'
26216 5' -53 NC_005342.2 + 12808 0.67 0.70513
Target:  5'- gAUC-AGCGGAAUGUgCGA-GAcGGCGCu -3'
miRNA:   3'- -UAGuUCGUCUUGCA-GCUuCU-CCGCGc -5'
26216 5' -53 NC_005342.2 + 30099 0.67 0.70513
Target:  5'- -gCGAuGCcGAACGUCGAAGcgaccGGCGCc -3'
miRNA:   3'- uaGUU-CGuCUUGCAGCUUCu----CCGCGc -5'
26216 5' -53 NC_005342.2 + 5016 0.67 0.704015
Target:  5'- -cCAGGCGGccggcuguuggccGACGUCGgcGcGGCGCu -3'
miRNA:   3'- uaGUUCGUC-------------UUGCAGCuuCuCCGCGc -5'
26216 5' -53 NC_005342.2 + 30340 0.67 0.69395
Target:  5'- gGUCGuGCAGcAGCG-CGGcaAGGCGCGg -3'
miRNA:   3'- -UAGUuCGUC-UUGCaGCUucUCCGCGC- -5'
26216 5' -53 NC_005342.2 + 22525 0.68 0.682706
Target:  5'- gAUCcAGUAGAACGUgauguugccgagCGAcGAGcGCGCGg -3'
miRNA:   3'- -UAGuUCGUCUUGCA------------GCUuCUC-CGCGC- -5'
26216 5' -53 NC_005342.2 + 3342 0.68 0.648713
Target:  5'- aAUCGAGCGGAACaauGUCGAcc-GGCGUc -3'
miRNA:   3'- -UAGUUCGUCUUG---CAGCUucuCCGCGc -5'
26216 5' -53 NC_005342.2 + 2956 0.68 0.637334
Target:  5'- cUCGAGCuucGGGACGUCGuucgcGAGccaAGGCGCc -3'
miRNA:   3'- uAGUUCG---UCUUGCAGC-----UUC---UCCGCGc -5'
26216 5' -53 NC_005342.2 + 16813 0.69 0.625949
Target:  5'- cUCGAGCAGcGCGUCGcGGccaAGGCGa- -3'
miRNA:   3'- uAGUUCGUCuUGCAGCuUC---UCCGCgc -5'
26216 5' -53 NC_005342.2 + 3933 0.7 0.546987
Target:  5'- uAUCAGGUuccaaauccAGAA-GUCGAAG-GGCGCGu -3'
miRNA:   3'- -UAGUUCG---------UCUUgCAGCUUCuCCGCGC- -5'
26216 5' -53 NC_005342.2 + 37501 0.7 0.535923
Target:  5'- -gCAGGCcaAGGAUG-CGAAGcGGCGCGa -3'
miRNA:   3'- uaGUUCG--UCUUGCaGCUUCuCCGCGC- -5'
26216 5' -53 NC_005342.2 + 35603 0.7 0.514041
Target:  5'- -cCGGGCGGGGCG-CGGGcGGGCGCu -3'
miRNA:   3'- uaGUUCGUCUUGCaGCUUcUCCGCGc -5'
26216 5' -53 NC_005342.2 + 15293 0.74 0.337772
Target:  5'- cGUCGAGCAGGuCGUCGAuGAacuugucgaucucGGCGCa -3'
miRNA:   3'- -UAGUUCGUCUuGCAGCUuCU-------------CCGCGc -5'
26216 5' -53 NC_005342.2 + 10328 0.74 0.322002
Target:  5'- -gCAGGCAGuuugGCGUCGccGAGaGCGCGa -3'
miRNA:   3'- uaGUUCGUCu---UGCAGCuuCUC-CGCGC- -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.