miRNA display CGI


Results 1 - 20 of 21 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
12176 5' -54.7 NC_003309.1 + 15443 0.66 0.781199
Target:  5'- aCGGCGuCGAgguagcGCGCGAGuGUcCGGCGc- -3'
miRNA:   3'- gGCCGC-GCU------UGCGUUC-CAaGCUGCuc -5'
12176 5' -54.7 NC_003309.1 + 10727 0.66 0.761217
Target:  5'- gCuGCGCGAGCGCGAGcGaagccUCGGCGc- -3'
miRNA:   3'- gGcCGCGCUUGCGUUC-Ca----AGCUGCuc -5'
12176 5' -54.7 NC_003309.1 + 10048 0.66 0.751026
Target:  5'- gCCGcGCGCGucAGCGCc----UCGACGAGa -3'
miRNA:   3'- -GGC-CGCGC--UUGCGuuccaAGCUGCUC- -5'
12176 5' -54.7 NC_003309.1 + 36549 0.67 0.744854
Target:  5'- gCCGGCGCGAuCGagAAGGcgaucgaagaaaagUUGACGAa -3'
miRNA:   3'- -GGCCGCGCUuGCg-UUCCa-------------AGCUGCUc -5'
12176 5' -54.7 NC_003309.1 + 32903 0.67 0.698517
Target:  5'- gCCGgacuGCGCGAcgGCAGGGUUCu-CGGGa -3'
miRNA:   3'- -GGC----CGCGCUugCGUUCCAAGcuGCUC- -5'
12176 5' -54.7 NC_003309.1 + 26659 0.68 0.687782
Target:  5'- aCCGGCcaugaGAACGCAAGGga-GuuGAGa -3'
miRNA:   3'- -GGCCGcg---CUUGCGUUCCaagCugCUC- -5'
12176 5' -54.7 NC_003309.1 + 44179 0.68 0.676995
Target:  5'- gCGGCGCGcugcCGCucGGcguacgCGACGAGu -3'
miRNA:   3'- gGCCGCGCuu--GCGuuCCaa----GCUGCUC- -5'
12176 5' -54.7 NC_003309.1 + 34405 0.68 0.666165
Target:  5'- gCCGaGCGUGAACGCAucaaagccuuGGagCG-CGAGg -3'
miRNA:   3'- -GGC-CGCGCUUGCGUu---------CCaaGCuGCUC- -5'
12176 5' -54.7 NC_003309.1 + 45739 0.68 0.666165
Target:  5'- gCCGGUcguacaGCGggUGCuucGGGUccgUGACGAGc -3'
miRNA:   3'- -GGCCG------CGCuuGCGu--UCCAa--GCUGCUC- -5'
12176 5' -54.7 NC_003309.1 + 16067 0.68 0.633531
Target:  5'- cCCGGaUGCGAAUGCAcGaGagCGACGAu -3'
miRNA:   3'- -GGCC-GCGCUUGCGUuC-CaaGCUGCUc -5'
12176 5' -54.7 NC_003309.1 + 9051 0.69 0.616105
Target:  5'- gCCGcaGCGCGAGCGacauCAggaagcggaggccugGGGUUCGGCGGa -3'
miRNA:   3'- -GGC--CGCGCUUGC----GU---------------UCCAAGCUGCUc -5'
12176 5' -54.7 NC_003309.1 + 32970 0.7 0.557757
Target:  5'- aCCGcGCGCuGAgGCGCGAGaGcgCGACGAc -3'
miRNA:   3'- -GGC-CGCG-CU-UGCGUUC-CaaGCUGCUc -5'
12176 5' -54.7 NC_003309.1 + 50214 0.71 0.494937
Target:  5'- gCCGaGCaagcagacaGuCGAGCGCGAGGUUCGAaaugcCGGGg -3'
miRNA:   3'- -GGC-CG---------C-GCUUGCGUUCCAAGCU-----GCUC- -5'
12176 5' -54.7 NC_003309.1 + 16202 0.71 0.484768
Target:  5'- gCCGGCGCGAAcuCGCAccAGucgUCGACGc- -3'
miRNA:   3'- -GGCCGCGCUU--GCGU--UCca-AGCUGCuc -5'
12176 5' -54.7 NC_003309.1 + 35332 0.71 0.471701
Target:  5'- aCCgGGCGCacacccgcaGAACaagcugccuaucggGCGGGGUUCGACGAa -3'
miRNA:   3'- -GG-CCGCG---------CUUG--------------CGUUCCAAGCUGCUc -5'
12176 5' -54.7 NC_003309.1 + 22437 0.72 0.445151
Target:  5'- gCCGGCGuCGAGCGC--GGcgCG-CGAGa -3'
miRNA:   3'- -GGCCGC-GCUUGCGuuCCaaGCuGCUC- -5'
12176 5' -54.7 NC_003309.1 + 12865 0.74 0.354719
Target:  5'- gCCGcGCGCGccgaaaaccGCGCGAGG-UCGGCGAu -3'
miRNA:   3'- -GGC-CGCGCu--------UGCGUUCCaAGCUGCUc -5'
12176 5' -54.7 NC_003309.1 + 13299 0.75 0.278038
Target:  5'- uUCGGaacuccccaacCGCGAucaggcuCGCAGGGUUCGACGAu -3'
miRNA:   3'- -GGCC-----------GCGCUu------GCGUUCCAAGCUGCUc -5'
12176 5' -54.7 NC_003309.1 + 44856 0.76 0.24493
Target:  5'- gCCGGCgGCGAuccGCGCAAGGUUCGcuCGc- -3'
miRNA:   3'- -GGCCG-CGCU---UGCGUUCCAAGCu-GCuc -5'
12176 5' -54.7 NC_003309.1 + 15983 0.77 0.220856
Target:  5'- gUCGGCGCGGcUGCGAGGuUUCGGCaGGGc -3'
miRNA:   3'- -GGCCGCGCUuGCGUUCC-AAGCUG-CUC- -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.