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
12231 3' -55.7 NC_003309.1 + 2213 0.66 0.703277
Target:  5'- cCGUCGAuuuuGUugucguuacccuGCUUGAUCgGGCGCACcacGUCg -3'
miRNA:   3'- -GCAGCU----CG------------UGGACUAG-CCGCGUG---UAG- -5'
12231 3' -55.7 NC_003309.1 + 10724 0.66 0.692455
Target:  5'- gCG-CGAGCGCgaGcgaagccUCGGCGCGC-UCg -3'
miRNA:   3'- -GCaGCUCGUGgaCu------AGCCGCGUGuAG- -5'
12231 3' -55.7 NC_003309.1 + 35823 0.66 0.692455
Target:  5'- -uUCGAGC---UGGUCGGCGCA-AUCg -3'
miRNA:   3'- gcAGCUCGuggACUAGCCGCGUgUAG- -5'
12231 3' -55.7 NC_003309.1 + 9715 0.66 0.692455
Target:  5'- gCGUCGAGCgguuGCCgUGuGUCGcGCGCgaugcgcagcACGUCg -3'
miRNA:   3'- -GCAGCUCG----UGG-AC-UAGC-CGCG----------UGUAG- -5'
12231 3' -55.7 NC_003309.1 + 16572 0.66 0.670645
Target:  5'- cCGUCGuGCAgCa-GUCGGCcCACAUCc -3'
miRNA:   3'- -GCAGCuCGUgGacUAGCCGcGUGUAG- -5'
12231 3' -55.7 NC_003309.1 + 7814 0.67 0.637685
Target:  5'- cCGgCGAGCGCCauGUCGaGCGCGCc-- -3'
miRNA:   3'- -GCaGCUCGUGGacUAGC-CGCGUGuag -5'
12231 3' -55.7 NC_003309.1 + 9520 0.67 0.634382
Target:  5'- gCGUCGAGCgcgcgcaccgugACCUGcacgcuugCGGCGUucgaggcaaacgccGCAUCg -3'
miRNA:   3'- -GCAGCUCG------------UGGACua------GCCGCG--------------UGUAG- -5'
12231 3' -55.7 NC_003309.1 + 18742 0.67 0.626675
Target:  5'- aGUCG-GCGCCUuGUCGaGCGUgauCGUCu -3'
miRNA:   3'- gCAGCuCGUGGAcUAGC-CGCGu--GUAG- -5'
12231 3' -55.7 NC_003309.1 + 20535 0.67 0.604678
Target:  5'- cCGUCGAGCA--UGA--GGCGCGCcgCu -3'
miRNA:   3'- -GCAGCUCGUggACUagCCGCGUGuaG- -5'
12231 3' -55.7 NC_003309.1 + 7894 0.68 0.571882
Target:  5'- aGUCG-GCaaGCC-GAUCGGCGUcggugaACGUCg -3'
miRNA:   3'- gCAGCuCG--UGGaCUAGCCGCG------UGUAG- -5'
12231 3' -55.7 NC_003309.1 + 39950 0.68 0.561038
Target:  5'- uGUCGAGCACCUGuu--GCGCGa--- -3'
miRNA:   3'- gCAGCUCGUGGACuagcCGCGUguag -5'
12231 3' -55.7 NC_003309.1 + 11784 0.68 0.561038
Target:  5'- -uUCGAGCgACUUGuacgcGUCGGCGCGCc-- -3'
miRNA:   3'- gcAGCUCG-UGGAC-----UAGCCGCGUGuag -5'
12231 3' -55.7 NC_003309.1 + 20691 0.68 0.55025
Target:  5'- aCGUUGGGCACCgg---GGCGUuCAUCg -3'
miRNA:   3'- -GCAGCUCGUGGacuagCCGCGuGUAG- -5'
12231 3' -55.7 NC_003309.1 + 43208 0.69 0.48712
Target:  5'- -uUCGAGCAUCcGAUCGuCGUugGUCa -3'
miRNA:   3'- gcAGCUCGUGGaCUAGCcGCGugUAG- -5'
12231 3' -55.7 NC_003309.1 + 18654 0.7 0.466831
Target:  5'- aCGgCGAuCACCUGuccCGGCGCACAa- -3'
miRNA:   3'- -GCaGCUcGUGGACua-GCCGCGUGUag -5'
12231 3' -55.7 NC_003309.1 + 21215 0.7 0.418127
Target:  5'- aCGUCGAGCACacgGuaaaaCGGCGUcaacGCAUCu -3'
miRNA:   3'- -GCAGCUCGUGga-Cua---GCCGCG----UGUAG- -5'
12231 3' -55.7 NC_003309.1 + 3315 0.71 0.381466
Target:  5'- uGUCGAGCGCg-GAaaGGCGCagcGCGUCg -3'
miRNA:   3'- gCAGCUCGUGgaCUagCCGCG---UGUAG- -5'
12231 3' -55.7 NC_003309.1 + 34508 0.73 0.29888
Target:  5'- cCGUCGAaucgauuGCGCCgaUGAUCGGCuGCACGc- -3'
miRNA:   3'- -GCAGCU-------CGUGG--ACUAGCCG-CGUGUag -5'
12231 3' -55.7 NC_003309.1 + 19302 0.73 0.292232
Target:  5'- aCGcCGAGCGCgUuuUCGGCGCGCAc- -3'
miRNA:   3'- -GCaGCUCGUGgAcuAGCCGCGUGUag -5'
12231 3' -55.7 NC_003309.1 + 17304 0.74 0.270909
Target:  5'- -aUCGAGCACCU--UCGcGCGCGCAaUCg -3'
miRNA:   3'- gcAGCUCGUGGAcuAGC-CGCGUGU-AG- -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.