miRNA display CGI


Results 1 - 20 of 50 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
30553 5' -57.7 NC_006548.1 + 20779 0.66 0.47653
Target:  5'- gGCCUGgucaAGGCCG------GCCGCCUGc -3'
miRNA:   3'- -CGGACg---UCCGGCuugaguUGGCGGAC- -5'
30553 5' -57.7 NC_006548.1 + 29562 0.67 0.425527
Target:  5'- aCC-GCAGGCgGAACUCugguggcuggugcGGCUGCCa- -3'
miRNA:   3'- cGGaCGUCCGgCUUGAG-------------UUGGCGGac -5'
30553 5' -57.7 NC_006548.1 + 36916 0.66 0.436256
Target:  5'- -gCUGCAGGCCGucAACUgguUGACuCGUCUGc -3'
miRNA:   3'- cgGACGUCCGGC--UUGA---GUUG-GCGGAC- -5'
30553 5' -57.7 NC_006548.1 + 28754 0.66 0.436256
Target:  5'- aUCUGaCAGGagcccuggaagcCCGuGCUCGcGCCGCCUGg -3'
miRNA:   3'- cGGAC-GUCC------------GGCuUGAGU-UGGCGGAC- -5'
30553 5' -57.7 NC_006548.1 + 25845 0.66 0.456154
Target:  5'- aCgUGCGauguGGCgGAugUC-ACCGCCUGc -3'
miRNA:   3'- cGgACGU----CCGgCUugAGuUGGCGGAC- -5'
30553 5' -57.7 NC_006548.1 + 7416 0.66 0.466284
Target:  5'- aGCuCUGCAGGCagguCGAACUCGuugcguACCuCCUc -3'
miRNA:   3'- -CG-GACGUCCG----GCUUGAGU------UGGcGGAc -5'
30553 5' -57.7 NC_006548.1 + 7520 0.66 0.466284
Target:  5'- gGCCUGCucGGCC-AACUUGGCgaaGCCUu -3'
miRNA:   3'- -CGGACGu-CCGGcUUGAGUUGg--CGGAc -5'
30553 5' -57.7 NC_006548.1 + 29404 0.66 0.466284
Target:  5'- uCCUGCAGGCgGucAGC-CGAUCGCUg- -3'
miRNA:   3'- cGGACGUCCGgC--UUGaGUUGGCGGac -5'
30553 5' -57.7 NC_006548.1 + 7280 0.66 0.47653
Target:  5'- -gCUGCcGGUCGAGgUCAACCagGCgCUGg -3'
miRNA:   3'- cgGACGuCCGGCUUgAGUUGG--CG-GAC- -5'
30553 5' -57.7 NC_006548.1 + 29105 0.68 0.361992
Target:  5'- cGCCcaGCAGGCCGGuCUCGucagcgaacugGCCGCg-- -3'
miRNA:   3'- -CGGa-CGUCCGGCUuGAGU-----------UGGCGgac -5'
30553 5' -57.7 NC_006548.1 + 4882 0.68 0.353348
Target:  5'- uGCCUcCGGGCuCGAuUUCGGCCGCUc- -3'
miRNA:   3'- -CGGAcGUCCG-GCUuGAGUUGGCGGac -5'
30553 5' -57.7 NC_006548.1 + 18986 0.68 0.344851
Target:  5'- cGCCaUGUAGGCCcccgagccgGAACUggcgauuuccCGGCCGCCa- -3'
miRNA:   3'- -CGG-ACGUCCGG---------CUUGA----------GUUGGCGGac -5'
30553 5' -57.7 NC_006548.1 + 18735 0.73 0.156221
Target:  5'- aGCC-GCAGGCCGugcuGCUCGAC-GCCa- -3'
miRNA:   3'- -CGGaCGUCCGGCu---UGAGUUGgCGGac -5'
30553 5' -57.7 NC_006548.1 + 22200 0.73 0.156657
Target:  5'- cGCCUGgGGGCCGcacGCgucuuucaucuaccgCGAUCGCCUGg -3'
miRNA:   3'- -CGGACgUCCGGCu--UGa--------------GUUGGCGGAC- -5'
30553 5' -57.7 NC_006548.1 + 36368 0.72 0.189538
Target:  5'- gGCCUGCAGaugaacuacgcGCU--GCUCAGCCGCgUGg -3'
miRNA:   3'- -CGGACGUC-----------CGGcuUGAGUUGGCGgAC- -5'
30553 5' -57.7 NC_006548.1 + 17126 0.7 0.282215
Target:  5'- aUUUGCAGGCCGAugUUcGCCuugaCCUGg -3'
miRNA:   3'- cGGACGUCCGGCUugAGuUGGc---GGAC- -5'
30553 5' -57.7 NC_006548.1 + 13566 0.7 0.282215
Target:  5'- uGCCUGCGcGGgCGGcggcaagcugcuGCUCAACCagauccagaaaaGCCUGg -3'
miRNA:   3'- -CGGACGU-CCgGCU------------UGAGUUGG------------CGGAC- -5'
30553 5' -57.7 NC_006548.1 + 24446 0.7 0.282215
Target:  5'- cGCCUGCAauauGGCCGcuugcagcgcGGCaaGACCGCCa- -3'
miRNA:   3'- -CGGACGU----CCGGC----------UUGagUUGGCGGac -5'
30553 5' -57.7 NC_006548.1 + 21361 0.68 0.336501
Target:  5'- gGCgaGCGGuuGCCGcGACUCuGCCGCCg- -3'
miRNA:   3'- -CGgaCGUC--CGGC-UUGAGuUGGCGGac -5'
30553 5' -57.7 NC_006548.1 + 9245 0.68 0.336501
Target:  5'- cGCCUGUcgauugaucacGGGCUGGAuCUgGACgGCCUa -3'
miRNA:   3'- -CGGACG-----------UCCGGCUU-GAgUUGgCGGAc -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.