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
2903 3' -56.5 NC_001493.1 + 35447 0.66 0.865247
Target:  5'- cGAGCGGu-CUCCGCug-GGGCAGCAc -3'
miRNA:   3'- cUUCGCUucGAGGCGcugCUCGUCGU- -5'
2903 3' -56.5 NC_001493.1 + 45845 0.66 0.857514
Target:  5'- --cGCGAAGUUCUGUGcGCGA-CAGCc -3'
miRNA:   3'- cuuCGCUUCGAGGCGC-UGCUcGUCGu -5'
2903 3' -56.5 NC_001493.1 + 1320 0.66 0.841423
Target:  5'- aGAGCGu--CUCCGCGgaaGCGGGCAccGCGg -3'
miRNA:   3'- cUUCGCuucGAGGCGC---UGCUCGU--CGU- -5'
2903 3' -56.5 NC_001493.1 + 116874 0.66 0.841423
Target:  5'- aGAGCGu--CUCCGCGgaaGCGGGCAccGCGg -3'
miRNA:   3'- cUUCGCuucGAGGCGC---UGCUCGU--CGU- -5'
2903 3' -56.5 NC_001493.1 + 30203 0.67 0.806953
Target:  5'- cGGAGCGGGccGCUUaCGCGGCgGAGCgAGCc -3'
miRNA:   3'- -CUUCGCUU--CGAG-GCGCUG-CUCG-UCGu -5'
2903 3' -56.5 NC_001493.1 + 108303 0.67 0.797907
Target:  5'- uGAGGCGggGcCUCaCGcCGuCGGGUAGUc -3'
miRNA:   3'- -CUUCGCuuC-GAG-GC-GCuGCUCGUCGu -5'
2903 3' -56.5 NC_001493.1 + 10811 0.67 0.77936
Target:  5'- --cGgGGAGCUCgCGCGAuCGGGC-GCGu -3'
miRNA:   3'- cuuCgCUUCGAG-GCGCU-GCUCGuCGU- -5'
2903 3' -56.5 NC_001493.1 + 126365 0.67 0.77936
Target:  5'- --cGgGGAGCUCgCGCGAuCGGGC-GCGu -3'
miRNA:   3'- cuuCgCUUCGAG-GCGCU-GCUCGuCGU- -5'
2903 3' -56.5 NC_001493.1 + 5872 0.68 0.760269
Target:  5'- uAGGUGAcccAGCUCCGCaucgaGAGUGGCAg -3'
miRNA:   3'- cUUCGCU---UCGAGGCGcug--CUCGUCGU- -5'
2903 3' -56.5 NC_001493.1 + 121426 0.68 0.760269
Target:  5'- uAGGUGAcccAGCUCCGCaucgaGAGUGGCAg -3'
miRNA:   3'- cUUCGCU---UCGAGGCGcug--CUCGUCGU- -5'
2903 3' -56.5 NC_001493.1 + 91051 0.68 0.760269
Target:  5'- gGGAGCGAuuCUCCGCGGCcgccaaGGGUGGUu -3'
miRNA:   3'- -CUUCGCUucGAGGCGCUG------CUCGUCGu -5'
2903 3' -56.5 NC_001493.1 + 121228 0.68 0.720762
Target:  5'- uAGGUGAccAGCUCCGCaucgaGAGUGGCAg -3'
miRNA:   3'- cUUCGCU--UCGAGGCGcug--CUCGUCGU- -5'
2903 3' -56.5 NC_001493.1 + 5674 0.68 0.720762
Target:  5'- uAGGUGAccAGCUCCGCaucgaGAGUGGCAg -3'
miRNA:   3'- cUUCGCU--UCGAGGCGcug--CUCGUCGU- -5'
2903 3' -56.5 NC_001493.1 + 12169 0.69 0.669686
Target:  5'- gGAGGCGGgaauagauGGUggaCCGgGACGAGguGCGg -3'
miRNA:   3'- -CUUCGCU--------UCGa--GGCgCUGCUCguCGU- -5'
2903 3' -56.5 NC_001493.1 + 54192 0.69 0.669686
Target:  5'- uGAAGCGAGGggCCGCGAaccugGAGCA-CAu -3'
miRNA:   3'- -CUUCGCUUCgaGGCGCUg----CUCGUcGU- -5'
2903 3' -56.5 NC_001493.1 + 62634 0.7 0.638588
Target:  5'- -cGGCGAAGC-CCGCGG-GAGcCGGCc -3'
miRNA:   3'- cuUCGCUUCGaGGCGCUgCUC-GUCGu -5'
2903 3' -56.5 NC_001493.1 + 66134 0.7 0.632356
Target:  5'- cGAAGCGggGUgacucgaugggaacaUCCGCGACGGucuGUcGCAc -3'
miRNA:   3'- -CUUCGCuuCG---------------AGGCGCUGCU---CGuCGU- -5'
2903 3' -56.5 NC_001493.1 + 98379 0.7 0.6282
Target:  5'- cAAG-GGAGUUUCGUGAgGAGCAGUAa -3'
miRNA:   3'- cUUCgCUUCGAGGCGCUgCUCGUCGU- -5'
2903 3' -56.5 NC_001493.1 + 59636 0.7 0.617815
Target:  5'- cGggGCGAcaaucGaaaUCCGUGACGAGC-GCAu -3'
miRNA:   3'- -CuuCGCUu----Cg--AGGCGCUGCUCGuCGU- -5'
2903 3' -56.5 NC_001493.1 + 127724 0.7 0.597087
Target:  5'- gGAGGCGGgaauagauGGUggCCGgGACGAGguGCGg -3'
miRNA:   3'- -CUUCGCU--------UCGa-GGCgCUGCUCguCGU- -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.