miRNA display CGI


Results 1 - 20 of 22 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
12271 3' -55.1 NC_003309.1 + 25761 0.66 0.700174
Target:  5'- cGCgGAGCGCAugaUCggcgacggagggaucUGCGUCAUGuCGUAg -3'
miRNA:   3'- cCG-CUCGCGU---AGa--------------ACGCAGUAC-GCGU- -5'
12271 3' -55.1 NC_003309.1 + 11902 0.66 0.687027
Target:  5'- cGGCGAGCGCcuccgcaaccaccAUCUgcUGauUCAUcaGCGCGa -3'
miRNA:   3'- -CCGCUCGCG-------------UAGA--ACgcAGUA--CGCGU- -5'
12271 3' -55.1 NC_003309.1 + 15442 0.66 0.676012
Target:  5'- cGGCGucgagguAGCGCG-CgaGUGUCcgGCGCc -3'
miRNA:   3'- -CCGC-------UCGCGUaGaaCGCAGuaCGCGu -5'
12271 3' -55.1 NC_003309.1 + 42787 0.66 0.676012
Target:  5'- gGGCGAaaacaugGCGCuUCUUGCaGUCGuUGaCGCu -3'
miRNA:   3'- -CCGCU-------CGCGuAGAACG-CAGU-AC-GCGu -5'
12271 3' -55.1 NC_003309.1 + 19301 0.66 0.666061
Target:  5'- cGcCGAGCGCGUUUucgGCGcgCAcGCGCGc -3'
miRNA:   3'- cC-GCUCGCGUAGAa--CGCa-GUaCGCGU- -5'
12271 3' -55.1 NC_003309.1 + 5132 0.66 0.666061
Target:  5'- cGCGAGCGCA-----CGUacCAUGCGCGc -3'
miRNA:   3'- cCGCUCGCGUagaacGCA--GUACGCGU- -5'
12271 3' -55.1 NC_003309.1 + 10489 0.67 0.642754
Target:  5'- cGCGAggcuuucGCGCAUCgcGCG-CAUGcCGCGa -3'
miRNA:   3'- cCGCU-------CGCGUAGaaCGCaGUAC-GCGU- -5'
12271 3' -55.1 NC_003309.1 + 11208 0.68 0.599425
Target:  5'- cGCGA-CGCcUCcUGCuUCGUGCGCAg -3'
miRNA:   3'- cCGCUcGCGuAGaACGcAGUACGCGU- -5'
12271 3' -55.1 NC_003309.1 + 31915 0.68 0.577336
Target:  5'- cGGCGccAGCGCGUCUuuUGCucGUCGcuUGCGg- -3'
miRNA:   3'- -CCGC--UCGCGUAGA--ACG--CAGU--ACGCgu -5'
12271 3' -55.1 NC_003309.1 + 46657 0.68 0.577336
Target:  5'- gGGCcGGCGCGUaaUGCG-CA-GCGCAc -3'
miRNA:   3'- -CCGcUCGCGUAgaACGCaGUaCGCGU- -5'
12271 3' -55.1 NC_003309.1 + 17811 0.68 0.566357
Target:  5'- cGGCGAucgucgccguguGCGCGUUcgGCGUgAUacgGCGCAc -3'
miRNA:   3'- -CCGCU------------CGCGUAGaaCGCAgUA---CGCGU- -5'
12271 3' -55.1 NC_003309.1 + 18404 0.68 0.54457
Target:  5'- cGUGuAGCGCGUCUUGCGcUCGcUGC-CGa -3'
miRNA:   3'- cCGC-UCGCGUAGAACGC-AGU-ACGcGU- -5'
12271 3' -55.1 NC_003309.1 + 16002 0.69 0.533778
Target:  5'- uGCGAGCGCGaaUUGgucCGUCG-GCGCGg -3'
miRNA:   3'- cCGCUCGCGUagAAC---GCAGUaCGCGU- -5'
12271 3' -55.1 NC_003309.1 + 10948 0.69 0.523062
Target:  5'- cGCGAGCGcCGUC-UGCGcCGUcgccGCGCu -3'
miRNA:   3'- cCGCUCGC-GUAGaACGCaGUA----CGCGu -5'
12271 3' -55.1 NC_003309.1 + 17725 0.69 0.506094
Target:  5'- uGCGAGCGCucguagagcgacgucGUCUUGCcGUCGaaCGCAc -3'
miRNA:   3'- cCGCUCGCG---------------UAGAACG-CAGUacGCGU- -5'
12271 3' -55.1 NC_003309.1 + 8842 0.7 0.481099
Target:  5'- cGCGAacgaacagccGCGCAUucgCUUGCGU-GUGCGCGu -3'
miRNA:   3'- cCGCU----------CGCGUA---GAACGCAgUACGCGU- -5'
12271 3' -55.1 NC_003309.1 + 34332 0.7 0.431076
Target:  5'- uGGCGAGCGCGUUUUuCGcUCAgGCGgAg -3'
miRNA:   3'- -CCGCUCGCGUAGAAcGC-AGUaCGCgU- -5'
12271 3' -55.1 NC_003309.1 + 10377 0.7 0.431076
Target:  5'- uGGCGAGCGCcgCcUGCGccgccUCGUGuUGCu -3'
miRNA:   3'- -CCGCUCGCGuaGaACGC-----AGUAC-GCGu -5'
12271 3' -55.1 NC_003309.1 + 7813 0.71 0.42144
Target:  5'- cGGCGAGCGCcauGUCgagcGCGcCAUguacGCGCGu -3'
miRNA:   3'- -CCGCUCGCG---UAGaa--CGCaGUA----CGCGU- -5'
12271 3' -55.1 NC_003309.1 + 14490 0.71 0.42144
Target:  5'- uGCG-GCGUAUCaaGCGUCAucgguUGUGCAa -3'
miRNA:   3'- cCGCuCGCGUAGaaCGCAGU-----ACGCGU- -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.