miRNA display CGI


Results 1 - 20 of 29 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
31898 3' -62.1 NC_006938.1 + 968 0.66 0.436231
Target:  5'- gUGUC-CaGCCGGAG-C-AGGCCACUg -3'
miRNA:   3'- -ACAGcGcCGGCCUCaGcUCCGGUGGu -5'
31898 3' -62.1 NC_006938.1 + 30743 0.66 0.436231
Target:  5'- --aCGCGGCCagcuuggcGGGGUUGucGGCCugCu -3'
miRNA:   3'- acaGCGCCGG--------CCUCAGCu-CCGGugGu -5'
31898 3' -62.1 NC_006938.1 + 803 0.66 0.430765
Target:  5'- gUGUUGCcaGCCGGuGUggccgccuccgugccCGAGGCCuCCAa -3'
miRNA:   3'- -ACAGCGc-CGGCCuCA---------------GCUCCGGuGGU- -5'
31898 3' -62.1 NC_006938.1 + 27820 0.66 0.427144
Target:  5'- gGUCgGCGGCCGGAaggGUC-AGGuCCAgCu -3'
miRNA:   3'- aCAG-CGCCGGCCU---CAGcUCC-GGUgGu -5'
31898 3' -62.1 NC_006938.1 + 13536 0.66 0.41817
Target:  5'- -cUCGCGuuCCaGAGgCGGGGCCACCc -3'
miRNA:   3'- acAGCGCc-GGcCUCaGCUCCGGUGGu -5'
31898 3' -62.1 NC_006938.1 + 21038 0.66 0.41817
Target:  5'- gGUCGgGGCgguggcgucgaUGGAGuUCGAGGgaaCCGCCu -3'
miRNA:   3'- aCAGCgCCG-----------GCCUC-AGCUCC---GGUGGu -5'
31898 3' -62.1 NC_006938.1 + 21120 0.66 0.41817
Target:  5'- cUGUCcgacUGGCUGGAGUCccgcgcGGGCCACgAg -3'
miRNA:   3'- -ACAGc---GCCGGCCUCAGc-----UCCGGUGgU- -5'
31898 3' -62.1 NC_006938.1 + 56343 0.66 0.409312
Target:  5'- gUGUUGC-GCCGGAGcUCcAGGCCcugcGCCu -3'
miRNA:   3'- -ACAGCGcCGGCCUC-AGcUCCGG----UGGu -5'
31898 3' -62.1 NC_006938.1 + 17478 0.66 0.400572
Target:  5'- aUGUCGUuuccGGCCGugccGUCugccuGGGCCACCAg -3'
miRNA:   3'- -ACAGCG----CCGGCcu--CAGc----UCCGGUGGU- -5'
31898 3' -62.1 NC_006938.1 + 24004 0.67 0.375078
Target:  5'- aGUCGaCGGCCGaGAccGUgCGAGcgguggccguGCCACCGa -3'
miRNA:   3'- aCAGC-GCCGGC-CU--CA-GCUC----------CGGUGGU- -5'
31898 3' -62.1 NC_006938.1 + 32257 0.67 0.375078
Target:  5'- -uUCGuCGGCaGGGGaUGGGGCCugCAg -3'
miRNA:   3'- acAGC-GCCGgCCUCaGCUCCGGugGU- -5'
31898 3' -62.1 NC_006938.1 + 24920 0.67 0.366828
Target:  5'- -aUCGCGGCUGGcuacauGGUCGgccAGGUCACg- -3'
miRNA:   3'- acAGCGCCGGCC------UCAGC---UCCGGUGgu -5'
31898 3' -62.1 NC_006938.1 + 41854 0.67 0.358703
Target:  5'- cUGUCG-GGCUGGAGUUGccGUCGCUc -3'
miRNA:   3'- -ACAGCgCCGGCCUCAGCucCGGUGGu -5'
31898 3' -62.1 NC_006938.1 + 37525 0.67 0.350705
Target:  5'- cGcCGCcGCUGGcaagcuGGaCGAGGCCGCCAu -3'
miRNA:   3'- aCaGCGcCGGCC------UCaGCUCCGGUGGU- -5'
31898 3' -62.1 NC_006938.1 + 18136 0.67 0.350705
Target:  5'- gUGUgGCGGUgGGAccCGAGGaCGCCAu -3'
miRNA:   3'- -ACAgCGCCGgCCUcaGCUCCgGUGGU- -5'
31898 3' -62.1 NC_006938.1 + 9116 0.67 0.342834
Target:  5'- cUGUCGUugaaGuCCGGGGUCGucaGGGCCGCgAg -3'
miRNA:   3'- -ACAGCGc---C-GGCCUCAGC---UCCGGUGgU- -5'
31898 3' -62.1 NC_006938.1 + 61151 0.67 0.335091
Target:  5'- cUGUCGUGGUUcGAGUUGAcGaCCACCAu -3'
miRNA:   3'- -ACAGCGCCGGcCUCAGCUcC-GGUGGU- -5'
31898 3' -62.1 NC_006938.1 + 33377 0.69 0.2845
Target:  5'- gUGUgGCGGgUGG-GUCGAGaGCCggACCAu -3'
miRNA:   3'- -ACAgCGCCgGCCuCAGCUC-CGG--UGGU- -5'
31898 3' -62.1 NC_006938.1 + 1052 0.69 0.2845
Target:  5'- gUGUCGCGGC--GAG-CGAGGUCGuCCGg -3'
miRNA:   3'- -ACAGCGCCGgcCUCaGCUCCGGU-GGU- -5'
31898 3' -62.1 NC_006938.1 + 45038 0.69 0.277786
Target:  5'- aGUCGagGGCCGccca-GAGGCCACCGu -3'
miRNA:   3'- aCAGCg-CCGGCcucagCUCCGGUGGU- -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.