miRNA display CGI


Results 1 - 20 of 23 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
11958 3' -61 NC_003278.1 + 2350 0.66 0.328598
Target:  5'- uCUCGAGugcuggccgaacGGGCGGUGguacgagccGCCGCUGUCUa -3'
miRNA:   3'- cGAGUUC------------UCCGCCGC---------CGGUGACGGGg -5'
11958 3' -61 NC_003278.1 + 25571 0.66 0.320705
Target:  5'- gGCUCAAG-GGaa-CGGCCGCUGCg-- -3'
miRNA:   3'- -CGAGUUCuCCgccGCCGGUGACGggg -5'
11958 3' -61 NC_003278.1 + 19295 0.66 0.312954
Target:  5'- uGCgacgCAAGGGcGCGGUGGCU-CUGUCg- -3'
miRNA:   3'- -CGa---GUUCUC-CGCCGCCGGuGACGGgg -5'
11958 3' -61 NC_003278.1 + 7416 0.66 0.312954
Target:  5'- cGCUCGgccacuucGGcGGCGGUGGCagACUGCaCUg -3'
miRNA:   3'- -CGAGU--------UCuCCGCCGCCGg-UGACG-GGg -5'
11958 3' -61 NC_003278.1 + 31780 0.66 0.304593
Target:  5'- cGCUCGaagucgcGGAGGcCGGCcgGGuCCACgucgaUGCCaCCa -3'
miRNA:   3'- -CGAGU-------UCUCC-GCCG--CC-GGUG-----ACGG-GG- -5'
11958 3' -61 NC_003278.1 + 34325 0.67 0.283377
Target:  5'- uGCguaCAcGAGcGCGGCGGaaaaCCACgGUCCCc -3'
miRNA:   3'- -CGa--GUuCUC-CGCCGCC----GGUGaCGGGG- -5'
11958 3' -61 NC_003278.1 + 6364 0.67 0.262678
Target:  5'- -----cGGGGCaGUGGCCGCcGCCUCu -3'
miRNA:   3'- cgaguuCUCCGcCGCCGGUGaCGGGG- -5'
11958 3' -61 NC_003278.1 + 18353 0.67 0.256057
Target:  5'- aGUUCGAGuGGacccuCGGCGGCCuggaucugACaGCCCUc -3'
miRNA:   3'- -CGAGUUCuCC-----GCCGCCGG--------UGaCGGGG- -5'
11958 3' -61 NC_003278.1 + 14846 0.67 0.249573
Target:  5'- uGCUCAGGcugaacGCGGCcgGGCUACUaccgGCCUCg -3'
miRNA:   3'- -CGAGUUCuc----CGCCG--CCGGUGA----CGGGG- -5'
11958 3' -61 NC_003278.1 + 12889 0.68 0.245748
Target:  5'- gGgUCAAcGAGGCGGCucucgccaacaugcuGGCCAgcGCCCa -3'
miRNA:   3'- -CgAGUU-CUCCGCCG---------------CCGGUgaCGGGg -5'
11958 3' -61 NC_003278.1 + 4314 0.68 0.237012
Target:  5'- aGCUaCAAGGGGCGGCG-CUACUGa--- -3'
miRNA:   3'- -CGA-GUUCUCCGCCGCcGGUGACgggg -5'
11958 3' -61 NC_003278.1 + 16638 0.68 0.224985
Target:  5'- --cCGAGAGGUGGUGGUgGCgUGCgaCCg -3'
miRNA:   3'- cgaGUUCUCCGCCGCCGgUG-ACGg-GG- -5'
11958 3' -61 NC_003278.1 + 1712 0.68 0.216877
Target:  5'- cGgUCAGcGAGGUGGCGGCCAaggacgaguucgGCUCa -3'
miRNA:   3'- -CgAGUU-CUCCGCCGCCGGUga----------CGGGg -5'
11958 3' -61 NC_003278.1 + 14429 0.69 0.191983
Target:  5'- aGUUCGu--GGCGGUcGCCaACUGCCCg -3'
miRNA:   3'- -CGAGUucuCCGCCGcCGG-UGACGGGg -5'
11958 3' -61 NC_003278.1 + 26673 0.69 0.181963
Target:  5'- gGCcCAGGcGGGCGGCGGCgCAUUcGCgUCCg -3'
miRNA:   3'- -CGaGUUC-UCCGCCGCCG-GUGA-CG-GGG- -5'
11958 3' -61 NC_003278.1 + 26715 0.7 0.158916
Target:  5'- uGCUCGAGcAGGaaacCGGCaccaGCCACUuCCCCg -3'
miRNA:   3'- -CGAGUUC-UCC----GCCGc---CGGUGAcGGGG- -5'
11958 3' -61 NC_003278.1 + 19499 0.7 0.154634
Target:  5'- cGCgggUggGGuugccGGCGGCGGCCAuCUGCUgagCCa -3'
miRNA:   3'- -CGa--GuuCU-----CCGCCGCCGGU-GACGG---GG- -5'
11958 3' -61 NC_003278.1 + 26892 0.7 0.154634
Target:  5'- cGCgccuGAuGGCGGUGGCgAC-GCCCCu -3'
miRNA:   3'- -CGaguuCU-CCGCCGCCGgUGaCGGGG- -5'
11958 3' -61 NC_003278.1 + 20356 0.71 0.142411
Target:  5'- aGCgCAucGAGGUGcCGGCCauGCUGCCCUg -3'
miRNA:   3'- -CGaGUu-CUCCGCcGCCGG--UGACGGGG- -5'
11958 3' -61 NC_003278.1 + 14213 0.71 0.134759
Target:  5'- uGCUCAucgguGAcgccGGCGGCGcGCCcggcgagacgGCUGaCCCCa -3'
miRNA:   3'- -CGAGUu----CU----CCGCCGC-CGG----------UGAC-GGGG- -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.