miRNA display CGI


Results 1 - 20 of 68 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
26596 5' -62.1 NC_005357.1 + 27701 0.66 0.352792
Target:  5'- gGCCGCGcGccggcagCG-GCuCGCCGCCGGu -3'
miRNA:   3'- gCGGCGC-Cua-----GCuCGuGCGGCGGCUc -5'
26596 5' -62.1 NC_005357.1 + 28105 0.66 0.352792
Target:  5'- cCGUCGCGGugAUCGuggucacgcGGUACGCCugGUCGGGc -3'
miRNA:   3'- -GCGGCGCC--UAGC---------UCGUGCGG--CGGCUC- -5'
26596 5' -62.1 NC_005357.1 + 16877 0.66 0.351979
Target:  5'- aCGCCGacaucauCGGcuaCGGGgGCGCUGCCGGc -3'
miRNA:   3'- -GCGGC-------GCCua-GCUCgUGCGGCGGCUc -5'
26596 5' -62.1 NC_005357.1 + 16647 0.66 0.34472
Target:  5'- gCGCCGCGcGcAUCGcGGCcaucguUGCCGCCGc- -3'
miRNA:   3'- -GCGGCGC-C-UAGC-UCGu-----GCGGCGGCuc -5'
26596 5' -62.1 NC_005357.1 + 14915 0.66 0.34472
Target:  5'- cCGaCCGCGccgaGaAGCugGCgGCCGAGg -3'
miRNA:   3'- -GC-GGCGCcuagC-UCGugCGgCGGCUC- -5'
26596 5' -62.1 NC_005357.1 + 3736 0.66 0.34392
Target:  5'- uGCuCGCGGAUuugaUGAGgGCGgcacuucUCGCCGGGg -3'
miRNA:   3'- gCG-GCGCCUA----GCUCgUGC-------GGCGGCUC- -5'
26596 5' -62.1 NC_005357.1 + 163 0.66 0.339941
Target:  5'- cCGCagGCGGAUgcgccccggugucgcUGGGCaccgucACGCUGCCGGGc -3'
miRNA:   3'- -GCGg-CGCCUA---------------GCUCG------UGCGGCGGCUC- -5'
26596 5' -62.1 NC_005357.1 + 9732 0.66 0.332083
Target:  5'- aGCCGCGGGcgaacugcucguggUGGGCGCGCuuCGCCu-- -3'
miRNA:   3'- gCGGCGCCUa-------------GCUCGUGCG--GCGGcuc -5'
26596 5' -62.1 NC_005357.1 + 26249 0.66 0.328978
Target:  5'- uCGCCGaaGGcaCGGGCAC-CCGCCGGc -3'
miRNA:   3'- -GCGGCg-CCuaGCUCGUGcGGCGGCUc -5'
26596 5' -62.1 NC_005357.1 + 35653 0.66 0.328978
Target:  5'- gCGCUGaaccaGGccAUCGAGCAgGUCGCCaAGg -3'
miRNA:   3'- -GCGGCg----CC--UAGCUCGUgCGGCGGcUC- -5'
26596 5' -62.1 NC_005357.1 + 8310 0.66 0.328978
Target:  5'- aGCCaGCGGu----GCGCGCUGCuCGGGg -3'
miRNA:   3'- gCGG-CGCCuagcuCGUGCGGCG-GCUC- -5'
26596 5' -62.1 NC_005357.1 + 4536 0.66 0.321308
Target:  5'- uGCUGgGcGGUCGuGC-CGCCGCgGAa -3'
miRNA:   3'- gCGGCgC-CUAGCuCGuGCGGCGgCUc -5'
26596 5' -62.1 NC_005357.1 + 19903 0.66 0.321308
Target:  5'- gGCCGUGGcaagguuuucUUGcAGCuuguCGCCGCCGAa -3'
miRNA:   3'- gCGGCGCCu---------AGC-UCGu---GCGGCGGCUc -5'
26596 5' -62.1 NC_005357.1 + 11186 0.66 0.321308
Target:  5'- uCGCC-CGGcUCGuAGCugggcCGCgCGCCGGGg -3'
miRNA:   3'- -GCGGcGCCuAGC-UCGu----GCG-GCGGCUC- -5'
26596 5' -62.1 NC_005357.1 + 8373 0.66 0.313773
Target:  5'- cCGCCGCGcucGAaucuUCGAGaauCGCCGCCc-- -3'
miRNA:   3'- -GCGGCGC---CU----AGCUCgu-GCGGCGGcuc -5'
26596 5' -62.1 NC_005357.1 + 37568 0.66 0.306372
Target:  5'- uCGCCGgcgaGGAUUGgaAGCugGCCGCUu-- -3'
miRNA:   3'- -GCGGCg---CCUAGC--UCGugCGGCGGcuc -5'
26596 5' -62.1 NC_005357.1 + 4810 0.66 0.306372
Target:  5'- gCGCUGCGGGauu-GCugGCCGgCGAc -3'
miRNA:   3'- -GCGGCGCCUagcuCGugCGGCgGCUc -5'
26596 5' -62.1 NC_005357.1 + 32630 0.67 0.299105
Target:  5'- aCGCCGCGGucgcuguccuGUCGaAGUucgGCGCCG-CGAa -3'
miRNA:   3'- -GCGGCGCC----------UAGC-UCG---UGCGGCgGCUc -5'
26596 5' -62.1 NC_005357.1 + 19051 0.67 0.299105
Target:  5'- cCGCCgGCGGcGUCGAucaGCGUguccuCGCCGAGg -3'
miRNA:   3'- -GCGG-CGCC-UAGCUcg-UGCG-----GCGGCUC- -5'
26596 5' -62.1 NC_005357.1 + 19726 0.67 0.299105
Target:  5'- gCGCCGCGcAUCGcccugcuugGGCugGuuGCCGu- -3'
miRNA:   3'- -GCGGCGCcUAGC---------UCGugCggCGGCuc -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.