miRNA display CGI


Results 1 - 20 of 40 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
33043 3' -58.9 NC_007497.1 + 16771 0.71 0.212898
Target:  5'- -cCCGCaccCGCGCCGG-CGGaCGAGCAGc -3'
miRNA:   3'- aaGGCGc--GCGUGGUCuGCC-GCUUGUC- -5'
33043 3' -58.9 NC_007497.1 + 37735 0.67 0.405997
Target:  5'- cUCaCGCGCGaCACCacguAGuACGGCGAuuGGg -3'
miRNA:   3'- aAG-GCGCGC-GUGG----UC-UGCCGCUugUC- -5'
33043 3' -58.9 NC_007497.1 + 10891 0.66 0.415314
Target:  5'- -gCUGCGCuacCGCCccagcaagGGGCGGCGAACGu -3'
miRNA:   3'- aaGGCGCGc--GUGG--------UCUGCCGCUUGUc -5'
33043 3' -58.9 NC_007497.1 + 41066 0.66 0.415314
Target:  5'- cUUCGCGCGCGCC-GAUGuuGCGAAg-- -3'
miRNA:   3'- aAGGCGCGCGUGGuCUGC--CGCUUguc -5'
33043 3' -58.9 NC_007497.1 + 35490 0.66 0.415314
Target:  5'- aUUCCGCaGCGCGUCGaucagguucucGACGGUGAGCu- -3'
miRNA:   3'- -AAGGCG-CGCGUGGU-----------CUGCCGCUUGuc -5'
33043 3' -58.9 NC_007497.1 + 3683 0.66 0.424761
Target:  5'- cUUCCGCGC-CuCCAGAUGGUcGGCGu -3'
miRNA:   3'- -AAGGCGCGcGuGGUCUGCCGcUUGUc -5'
33043 3' -58.9 NC_007497.1 + 16931 0.66 0.434334
Target:  5'- cUUCGUuCGCACCcucgccGGCGGaCGAACGGg -3'
miRNA:   3'- aAGGCGcGCGUGGu-----CUGCC-GCUUGUC- -5'
33043 3' -58.9 NC_007497.1 + 23833 0.66 0.444032
Target:  5'- cUCCGCGUGCucgAUCAGACGuugcuccaggcGCGcGCGGc -3'
miRNA:   3'- aAGGCGCGCG---UGGUCUGC-----------CGCuUGUC- -5'
33043 3' -58.9 NC_007497.1 + 40594 0.66 0.463785
Target:  5'- -cCCgGCGCGCGCCAucGACGcuuCGAugAGc -3'
miRNA:   3'- aaGG-CGCGCGUGGU--CUGCc--GCUugUC- -5'
33043 3' -58.9 NC_007497.1 + 33838 0.67 0.405997
Target:  5'- aUUCCGCGCGUugCuGGGCGGUcauaccGAugAc -3'
miRNA:   3'- -AAGGCGCGCGugG-UCUGCCG------CUugUc -5'
33043 3' -58.9 NC_007497.1 + 17038 0.67 0.405997
Target:  5'- -gCCGCGcCGCAUCugccaacgAGACGG-GGGCGGa -3'
miRNA:   3'- aaGGCGC-GCGUGG--------UCUGCCgCUUGUC- -5'
33043 3' -58.9 NC_007497.1 + 4988 0.67 0.387764
Target:  5'- -cCCGCuGCGCucGCCAGugGucaGCGAACu- -3'
miRNA:   3'- aaGGCG-CGCG--UGGUCugC---CGCUUGuc -5'
33043 3' -58.9 NC_007497.1 + 32757 0.7 0.236476
Target:  5'- cUCgGCGCGC-CCAG-CGGCGuucucGGCGGa -3'
miRNA:   3'- aAGgCGCGCGuGGUCuGCCGC-----UUGUC- -5'
33043 3' -58.9 NC_007497.1 + 22865 0.7 0.236476
Target:  5'- gUUCGCGCGCGCUGcGACGuaaCGAGCGGc -3'
miRNA:   3'- aAGGCGCGCGUGGU-CUGCc--GCUUGUC- -5'
33043 3' -58.9 NC_007497.1 + 15996 0.69 0.308033
Target:  5'- aUCCGUGCGCGCCgauaaaccggccuugGGcuaccGCGcGCGAGCAc -3'
miRNA:   3'- aAGGCGCGCGUGG---------------UC-----UGC-CGCUUGUc -5'
33043 3' -58.9 NC_007497.1 + 20918 0.68 0.31186
Target:  5'- -aUCGUGCGCaACCAGGCacugaucGGCGAgaaACGGa -3'
miRNA:   3'- aaGGCGCGCG-UGGUCUG-------CCGCU---UGUC- -5'
33043 3' -58.9 NC_007497.1 + 16855 0.68 0.31263
Target:  5'- aUCUGCGUGCACCccaaaGGCGucuACGGg -3'
miRNA:   3'- aAGGCGCGCGUGGucug-CCGCu--UGUC- -5'
33043 3' -58.9 NC_007497.1 + 21328 0.68 0.336391
Target:  5'- --aC-CGCGCGCCGGACGGCu--CAGc -3'
miRNA:   3'- aagGcGCGCGUGGUCUGCCGcuuGUC- -5'
33043 3' -58.9 NC_007497.1 + 16169 0.67 0.361443
Target:  5'- aUCCcgGCaCGCACCgAGACGGCGAc--- -3'
miRNA:   3'- aAGG--CGcGCGUGG-UCUGCCGCUuguc -5'
33043 3' -58.9 NC_007497.1 + 2545 0.67 0.378851
Target:  5'- --gCGUGCGCGCCGG-CGGCc-GCGGc -3'
miRNA:   3'- aagGCGCGCGUGGUCuGCCGcuUGUC- -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.