miRNA display CGI


Results 1 - 20 of 65 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
12956 3' -57.7 NC_003387.1 + 35356 1.1 0.00041
Target:  5'- cGAGACAGGCUCGCCGCACCUGAUCGCc -3'
miRNA:   3'- -CUCUGUCCGAGCGGCGUGGACUAGCG- -5'
12956 3' -57.7 NC_003387.1 + 44396 0.76 0.13129
Target:  5'- cGAGGCGaaGCUCGCCGCGgCUGA-CGCu -3'
miRNA:   3'- -CUCUGUc-CGAGCGGCGUgGACUaGCG- -5'
12956 3' -57.7 NC_003387.1 + 46352 0.74 0.201859
Target:  5'- cGAGGCGGGCUUGUCGgUgccgaaaaugacgGCCUGGUCGa -3'
miRNA:   3'- -CUCUGUCCGAGCGGC-G-------------UGGACUAGCg -5'
12956 3' -57.7 NC_003387.1 + 36657 0.73 0.207254
Target:  5'- cGAGugGcaucaccGGCUCGCCG-ACCUGGcCGCg -3'
miRNA:   3'- -CUCugU-------CCGAGCGGCgUGGACUaGCG- -5'
12956 3' -57.7 NC_003387.1 + 52253 0.73 0.2078
Target:  5'- cGAGACugacGGCaaCGCCGCGCCcGAgcgCGCg -3'
miRNA:   3'- -CUCUGu---CCGa-GCGGCGUGGaCUa--GCG- -5'
12956 3' -57.7 NC_003387.1 + 19527 0.72 0.242912
Target:  5'- cGGGGCAa-CUCGCUGCugCcGAUCGCg -3'
miRNA:   3'- -CUCUGUccGAGCGGCGugGaCUAGCG- -5'
12956 3' -57.7 NC_003387.1 + 13168 0.72 0.249223
Target:  5'- cGAGGuCAGGCUCG-CGUGCCaUGAUCaGCc -3'
miRNA:   3'- -CUCU-GUCCGAGCgGCGUGG-ACUAG-CG- -5'
12956 3' -57.7 NC_003387.1 + 46591 0.72 0.26897
Target:  5'- cGGGCAGGgUCGCCaGCACCggcaGGUgCGUg -3'
miRNA:   3'- cUCUGUCCgAGCGG-CGUGGa---CUA-GCG- -5'
12956 3' -57.7 NC_003387.1 + 49074 0.72 0.26897
Target:  5'- cGGGCAGGCUCGCgGCGCgCaGG-CGUa -3'
miRNA:   3'- cUCUGUCCGAGCGgCGUG-GaCUaGCG- -5'
12956 3' -57.7 NC_003387.1 + 41784 0.71 0.275827
Target:  5'- aAGcCGGGCgcgUGCCGCgACCUGG-CGCa -3'
miRNA:   3'- cUCuGUCCGa--GCGGCG-UGGACUaGCG- -5'
12956 3' -57.7 NC_003387.1 + 29860 0.71 0.282823
Target:  5'- cGAGuGCAGGCUgaucagugCGCCuugcGCGCC-GAUCGCg -3'
miRNA:   3'- -CUC-UGUCCGA--------GCGG----CGUGGaCUAGCG- -5'
12956 3' -57.7 NC_003387.1 + 43374 0.71 0.297236
Target:  5'- gGAGAUA-GCUCGCCuGCACggcgcccggCUGGUCGUg -3'
miRNA:   3'- -CUCUGUcCGAGCGG-CGUG---------GACUAGCG- -5'
12956 3' -57.7 NC_003387.1 + 346 0.71 0.312212
Target:  5'- -cGAUuGGCUCGCCGCAaacgugacagUCUGGcucgUCGCg -3'
miRNA:   3'- cuCUGuCCGAGCGGCGU----------GGACU----AGCG- -5'
12956 3' -57.7 NC_003387.1 + 32327 0.7 0.335736
Target:  5'- -cGACAuGGaC-CGCUGCGgCUGAUCGCc -3'
miRNA:   3'- cuCUGU-CC-GaGCGGCGUgGACUAGCG- -5'
12956 3' -57.7 NC_003387.1 + 6058 0.7 0.352124
Target:  5'- cGGGCAGGUUCGagCGCACCaUGAcgacCGCc -3'
miRNA:   3'- cUCUGUCCGAGCg-GCGUGG-ACUa---GCG- -5'
12956 3' -57.7 NC_003387.1 + 21708 0.69 0.369072
Target:  5'- cGAG-CGcGGCccgCGCCG-ACCUGGUCGUg -3'
miRNA:   3'- -CUCuGU-CCGa--GCGGCgUGGACUAGCG- -5'
12956 3' -57.7 NC_003387.1 + 19638 0.69 0.376878
Target:  5'- -cGGCGGGCgacgcgguuacgcUCGCgGCGCUUGG-CGCg -3'
miRNA:   3'- cuCUGUCCG-------------AGCGgCGUGGACUaGCG- -5'
12956 3' -57.7 NC_003387.1 + 8934 0.69 0.377753
Target:  5'- cGAGgaaGCGGGCgaCGCCGguCCUGGugUCGUc -3'
miRNA:   3'- -CUC---UGUCCGa-GCGGCguGGACU--AGCG- -5'
12956 3' -57.7 NC_003387.1 + 5851 0.69 0.377753
Target:  5'- --cGCAGGUgggggCGCCGCAaccguCCUGGUgCGCu -3'
miRNA:   3'- cucUGUCCGa----GCGGCGU-----GGACUA-GCG- -5'
12956 3' -57.7 NC_003387.1 + 33387 0.69 0.38657
Target:  5'- cGGcCAGGUucUCGCCGCGCUc-GUCGCu -3'
miRNA:   3'- cUCuGUCCG--AGCGGCGUGGacUAGCG- -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.