miRNA display CGI


Results 1 - 20 of 41 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
12219 3' -53.8 NC_003309.1 + 35484 0.77 0.245431
Target:  5'- gCCGAu-UGCAGCGCAUgGACACcgacGCCg -3'
miRNA:   3'- -GGCUcuACGUCGCGUAgUUGUGc---CGG- -5'
12219 3' -53.8 NC_003309.1 + 16008 0.76 0.251902
Target:  5'- aUCG-GAUGCgAGCGCgaauugguccGUCGGCGCGGCUg -3'
miRNA:   3'- -GGCuCUACG-UCGCG----------UAGUUGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 18712 0.76 0.272156
Target:  5'- gCCG-GcUGCGGCGCG--GAUACGGCCg -3'
miRNA:   3'- -GGCuCuACGUCGCGUagUUGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 43094 0.75 0.324457
Target:  5'- aCCGAGAcGCGGCGCGagCGACucACuGCCg -3'
miRNA:   3'- -GGCUCUaCGUCGCGUa-GUUG--UGcCGG- -5'
12219 3' -53.8 NC_003309.1 + 22398 0.73 0.382981
Target:  5'- uUCGGcAUGCcgcuGCGCGUCGaacgcccGCGCGGCCu -3'
miRNA:   3'- -GGCUcUACGu---CGCGUAGU-------UGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 5164 0.73 0.383879
Target:  5'- uUCGAGGcgaGCuGCGCGUCGcCGCGcGCCg -3'
miRNA:   3'- -GGCUCUa--CGuCGCGUAGUuGUGC-CGG- -5'
12219 3' -53.8 NC_003309.1 + 5335 0.72 0.430522
Target:  5'- uUCGAGAgcgGCAGCGU----GCGCGcGCCg -3'
miRNA:   3'- -GGCUCUa--CGUCGCGuaguUGUGC-CGG- -5'
12219 3' -53.8 NC_003309.1 + 22474 0.71 0.501026
Target:  5'- gCCGAc--GCGGCgGCAUCGuGCGCGGCg -3'
miRNA:   3'- -GGCUcuaCGUCG-CGUAGU-UGUGCCGg -5'
12219 3' -53.8 NC_003309.1 + 39001 0.71 0.522109
Target:  5'- uCCGGcgccAUGCAGCGCAUUgAGC-CGGCa -3'
miRNA:   3'- -GGCUc---UACGUCGCGUAG-UUGuGCCGg -5'
12219 3' -53.8 NC_003309.1 + 9764 0.71 0.529569
Target:  5'- cCCGAGAUGCGaCGCGUUguuugcgauccgcuGAUAcagcuCGGCCg -3'
miRNA:   3'- -GGCUCUACGUcGCGUAG--------------UUGU-----GCCGG- -5'
12219 3' -53.8 NC_003309.1 + 35657 0.7 0.565223
Target:  5'- gCGAGAUcCAGCGCGaCGACcaaGGCUg -3'
miRNA:   3'- gGCUCUAcGUCGCGUaGUUGug-CCGG- -5'
12219 3' -53.8 NC_003309.1 + 47496 0.7 0.587139
Target:  5'- cUCGAG--GCGGCGCAgCGACACcuucGCCg -3'
miRNA:   3'- -GGCUCuaCGUCGCGUaGUUGUGc---CGG- -5'
12219 3' -53.8 NC_003309.1 + 18415 0.69 0.619169
Target:  5'- aCGAGcgcgaccGUGUAGCGCGUCuugcgcuCGCuGCCg -3'
miRNA:   3'- gGCUC-------UACGUCGCGUAGuu-----GUGcCGG- -5'
12219 3' -53.8 NC_003309.1 + 46487 0.69 0.620276
Target:  5'- gCGGGAacUGCucGCGCAU-AGCGCGGUUg -3'
miRNA:   3'- gGCUCU--ACGu-CGCGUAgUUGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 29731 0.69 0.624707
Target:  5'- uCCGAcugggccaauGAUGCAGUGCAUCGuCgaucuaugcuaucugACGGCa -3'
miRNA:   3'- -GGCU----------CUACGUCGCGUAGUuG---------------UGCCGg -5'
12219 3' -53.8 NC_003309.1 + 35600 0.68 0.653506
Target:  5'- aCGAgGAUGU-GCGCAUCGACA-GGUUc -3'
miRNA:   3'- gGCU-CUACGuCGCGUAGUUGUgCCGG- -5'
12219 3' -53.8 NC_003309.1 + 35374 0.68 0.653506
Target:  5'- cCCaAGGUGCGcCGCgAUCGcACACGGCa -3'
miRNA:   3'- -GGcUCUACGUcGCG-UAGU-UGUGCCGg -5'
12219 3' -53.8 NC_003309.1 + 22338 0.68 0.672275
Target:  5'- gCCGAucaGGUGCucgacgcaAGCGCcggccgccaugccaAgCAGCGCGGCCa -3'
miRNA:   3'- -GGCU---CUACG--------UCGCG--------------UaGUUGUGCCGG- -5'
12219 3' -53.8 NC_003309.1 + 16798 0.68 0.675577
Target:  5'- gCCGAGAuUGCgccGGC-CGUUgAACACGGCg -3'
miRNA:   3'- -GGCUCU-ACG---UCGcGUAG-UUGUGCCGg -5'
12219 3' -53.8 NC_003309.1 + 3944 0.68 0.686556
Target:  5'- uCCGAuGcgGCAGC-CAUCuGCGC-GCCg -3'
miRNA:   3'- -GGCU-CuaCGUCGcGUAGuUGUGcCGG- -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.