miRNA display CGI


Results 1 - 14 of 14 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
23409 3' -56.5 NC_005259.1 + 41884 0.66 0.733781
Target:  5'- uGGCGggcCGAuacgcaugcGGGAUgagcGCGGGAGCUCGa -3'
miRNA:   3'- -UCGCa--GCU---------CCCUGu---CGUCUUCGAGCc -5'
23409 3' -56.5 NC_005259.1 + 32898 0.66 0.713077
Target:  5'- gGGgG-CGAGGGugAGCcacccGGcccGCUCGGg -3'
miRNA:   3'- -UCgCaGCUCCCugUCG-----UCuu-CGAGCC- -5'
23409 3' -56.5 NC_005259.1 + 9033 0.66 0.713077
Target:  5'- cGGUGcUCGAucaugugcGGGGCGGUAaccGGCUCGGu -3'
miRNA:   3'- -UCGC-AGCU--------CCCUGUCGUcu-UCGAGCC- -5'
23409 3' -56.5 NC_005259.1 + 50412 0.67 0.685722
Target:  5'- cGCGcCGGugccuugaccggcucGGG-CAGCGGugcGGGCUCGGg -3'
miRNA:   3'- uCGCaGCU---------------CCCuGUCGUC---UUCGAGCC- -5'
23409 3' -56.5 NC_005259.1 + 60738 0.67 0.628058
Target:  5'- cGUGUCGGGGucCAuuugcaguGCAGucGGCUCGGc -3'
miRNA:   3'- uCGCAGCUCCcuGU--------CGUCu-UCGAGCC- -5'
23409 3' -56.5 NC_005259.1 + 34558 0.67 0.628058
Target:  5'- uGcCGUCGGGGccGACGGC-GAGGUucUCGGa -3'
miRNA:   3'- uC-GCAGCUCC--CUGUCGuCUUCG--AGCC- -5'
23409 3' -56.5 NC_005259.1 + 58949 0.68 0.585319
Target:  5'- cAGCGUCGGccuuGGcCAGCAGGucgggcAGCUCGu -3'
miRNA:   3'- -UCGCAGCUc---CCuGUCGUCU------UCGAGCc -5'
23409 3' -56.5 NC_005259.1 + 36457 0.68 0.573647
Target:  5'- cGCGUCGAGGGugAGCAccgcccaccacccGAu-CUCGcGg -3'
miRNA:   3'- uCGCAGCUCCCugUCGU-------------CUucGAGC-C- -5'
23409 3' -56.5 NC_005259.1 + 27397 0.69 0.522457
Target:  5'- cGGUGUCGGca-GCGGCGGcAGCUCGGu -3'
miRNA:   3'- -UCGCAGCUcccUGUCGUCuUCGAGCC- -5'
23409 3' -56.5 NC_005259.1 + 10334 0.69 0.522457
Target:  5'- cGGCGaCGGgcucGGcGGCAGCGGGcucgacaucgGGCUCGGa -3'
miRNA:   3'- -UCGCaGCU----CC-CUGUCGUCU----------UCGAGCC- -5'
23409 3' -56.5 NC_005259.1 + 59303 0.7 0.452709
Target:  5'- cGCuGUCGuGGcGGCAGCGGcGAGCUCa- -3'
miRNA:   3'- uCG-CAGCuCC-CUGUCGUC-UUCGAGcc -5'
23409 3' -56.5 NC_005259.1 + 59135 0.73 0.346209
Target:  5'- gAGCGUCGAGcucGGCAGCGGu-GC-CGGg -3'
miRNA:   3'- -UCGCAGCUCc--CUGUCGUCuuCGaGCC- -5'
23409 3' -56.5 NC_005259.1 + 68120 0.73 0.346209
Target:  5'- cGgGUCGAGa-GCAGCGGcGAGCUCGGc -3'
miRNA:   3'- uCgCAGCUCccUGUCGUC-UUCGAGCC- -5'
23409 3' -56.5 NC_005259.1 + 58212 0.73 0.338184
Target:  5'- cGGUGUC-AGGGuCAGUGGccucGAGCUCGGg -3'
miRNA:   3'- -UCGCAGcUCCCuGUCGUC----UUCGAGCC- -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.