miRNA display CGI


Results 1 - 20 of 22 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
30429 5' -53.6 NC_006548.1 + 2823 0.66 0.699149
Target:  5'- cCGCguGGACCaAGCUgggaacauccGUAccGGCAGCGu -3'
miRNA:   3'- aGUGguCCUGG-UCGAa---------CAU--CCGUUGC- -5'
30429 5' -53.6 NC_006548.1 + 37389 0.66 0.692353
Target:  5'- gUCACCGGcagcggcucaaaucaGAaccgcCUAGCUcgcugGUGGGCAACGg -3'
miRNA:   3'- -AGUGGUC---------------CU-----GGUCGAa----CAUCCGUUGC- -5'
30429 5' -53.6 NC_006548.1 + 29176 0.66 0.68781
Target:  5'- -gGCCAGuucgcugacgaGACCGGCcUGcUGGGCGGCc -3'
miRNA:   3'- agUGGUC-----------CUGGUCGaAC-AUCCGUUGc -5'
30429 5' -53.6 NC_006548.1 + 38195 0.66 0.68781
Target:  5'- cUCACCgAGGACCAGCgcgaauGCAuCGa -3'
miRNA:   3'- -AGUGG-UCCUGGUCGaacaucCGUuGC- -5'
30429 5' -53.6 NC_006548.1 + 9882 0.66 0.654641
Target:  5'- cCGCCAGG-CCGGCaaaaccuucaccgaGUGGGCAAa- -3'
miRNA:   3'- aGUGGUCCuGGUCGaa------------CAUCCGUUgc -5'
30429 5' -53.6 NC_006548.1 + 30754 0.67 0.618979
Target:  5'- gUCGCUAacgucGGACCAGCggGUu-GCAACGu -3'
miRNA:   3'- -AGUGGU-----CCUGGUCGaaCAucCGUUGC- -5'
30429 5' -53.6 NC_006548.1 + 20094 0.67 0.614379
Target:  5'- gCACCAGGugguGCCGGaguucgccgAGGCGGCGa -3'
miRNA:   3'- aGUGGUCC----UGGUCgaaca----UCCGUUGC- -5'
30429 5' -53.6 NC_006548.1 + 35014 0.67 0.607485
Target:  5'- -gGCgCAGGGCCAGCUcGUcaccGGUAGCc -3'
miRNA:   3'- agUG-GUCCUGGUCGAaCAu---CCGUUGc -5'
30429 5' -53.6 NC_006548.1 + 7099 0.68 0.573183
Target:  5'- aUCACCAGGGCCucgucacGCccc-AGGCGGCu -3'
miRNA:   3'- -AGUGGUCCUGGu------CGaacaUCCGUUGc -5'
30429 5' -53.6 NC_006548.1 + 1192 0.68 0.573183
Target:  5'- aCGCCAGGAgCCGGCUgcaaagccgGUacGGGCGcUGg -3'
miRNA:   3'- aGUGGUCCU-GGUCGAa--------CA--UCCGUuGC- -5'
30429 5' -53.6 NC_006548.1 + 29673 0.68 0.561842
Target:  5'- gCGgCAGGugCGGCUgccgGUAguGGCGGCu -3'
miRNA:   3'- aGUgGUCCugGUCGAa---CAU--CCGUUGc -5'
30429 5' -53.6 NC_006548.1 + 35441 0.68 0.550563
Target:  5'- -gGCCGGcGACCAGg-UGaAGGCGAUGa -3'
miRNA:   3'- agUGGUC-CUGGUCgaACaUCCGUUGC- -5'
30429 5' -53.6 NC_006548.1 + 12592 0.69 0.495379
Target:  5'- -aACCAGG-CCAGCUgGUcGGCGcCGg -3'
miRNA:   3'- agUGGUCCuGGUCGAaCAuCCGUuGC- -5'
30429 5' -53.6 NC_006548.1 + 5575 0.69 0.493222
Target:  5'- -gGCCAGGccggGCCGGCUUGcgcaacugguuGGCGAUGg -3'
miRNA:   3'- agUGGUCC----UGGUCGAACau---------CCGUUGC- -5'
30429 5' -53.6 NC_006548.1 + 2444 0.69 0.474005
Target:  5'- aUCuCCAGGuuguaggcuuccAUCAGUUUGUGGGCAugACGc -3'
miRNA:   3'- -AGuGGUCC------------UGGUCGAACAUCCGU--UGC- -5'
30429 5' -53.6 NC_006548.1 + 29504 0.71 0.412868
Target:  5'- gUUGCCuucuGGGCCAGCUgcUGcgcGGCAACGu -3'
miRNA:   3'- -AGUGGu---CCUGGUCGA--ACau-CCGUUGC- -5'
30429 5' -53.6 NC_006548.1 + 25358 0.72 0.348041
Target:  5'- gCugCGcGACCAGCgaaugGUGGGCGGCa -3'
miRNA:   3'- aGugGUcCUGGUCGaa---CAUCCGUUGc -5'
30429 5' -53.6 NC_006548.1 + 23187 0.72 0.338538
Target:  5'- gCACCAGGacguucgGCCAGCUcc--GGCAGCGu -3'
miRNA:   3'- aGUGGUCC-------UGGUCGAacauCCGUUGC- -5'
30429 5' -53.6 NC_006548.1 + 13276 0.76 0.204518
Target:  5'- gCACCAGGugCcGCUcgGUAGGCGGuCGa -3'
miRNA:   3'- aGUGGUCCugGuCGAa-CAUCCGUU-GC- -5'
30429 5' -53.6 NC_006548.1 + 23420 0.76 0.198892
Target:  5'- gCACCAGGACC-GCUUG-GGGCcaGGCGc -3'
miRNA:   3'- aGUGGUCCUGGuCGAACaUCCG--UUGC- -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.