miRNA display CGI


Results 1 - 19 of 19 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
1083 5' -56 NC_000929.1 + 3093 0.66 0.54987
Target:  5'- uGGCGGCgGCGauauuCAcGGCcuGCCGCAGCa- -3'
miRNA:   3'- -CCGCUGaCGU-----GUuUCG--CGGUGUCGgu -5'
1083 5' -56 NC_000929.1 + 5224 0.66 0.54987
Target:  5'- cGGCGAaaGCAUAucccGCGCCAUuGCg- -3'
miRNA:   3'- -CCGCUgaCGUGUuu--CGCGGUGuCGgu -5'
1083 5' -56 NC_000929.1 + 18717 0.66 0.538773
Target:  5'- aGCGugUccaGCGCGGucAGUGCCGCuguuGCCu -3'
miRNA:   3'- cCGCugA---CGUGUU--UCGCGGUGu---CGGu -5'
1083 5' -56 NC_000929.1 + 8577 0.66 0.538773
Target:  5'- aGGCG-CUGaACAuauuuauccAGCGCCACAucaccGCCAu -3'
miRNA:   3'- -CCGCuGACgUGUu--------UCGCGGUGU-----CGGU- -5'
1083 5' -56 NC_000929.1 + 2421 0.66 0.505976
Target:  5'- aGCGAUUGgGC---GCGCCucccguCAGCCAu -3'
miRNA:   3'- cCGCUGACgUGuuuCGCGGu-----GUCGGU- -5'
1083 5' -56 NC_000929.1 + 30110 0.66 0.495232
Target:  5'- uGGCGGCUGuCGCcuguuuGCGgCGCAcGCCc -3'
miRNA:   3'- -CCGCUGAC-GUGuuu---CGCgGUGU-CGGu -5'
1083 5' -56 NC_000929.1 + 13838 0.67 0.484593
Target:  5'- cGCuGACacCACAAAuGCGCCACGGCa- -3'
miRNA:   3'- cCG-CUGacGUGUUU-CGCGGUGUCGgu -5'
1083 5' -56 NC_000929.1 + 27284 0.67 0.457461
Target:  5'- cGGCGGCUuuuCACAGguauccuuuucagacAGUGgUACAGCCAc -3'
miRNA:   3'- -CCGCUGAc--GUGUU---------------UCGCgGUGUCGGU- -5'
1083 5' -56 NC_000929.1 + 28423 0.67 0.453359
Target:  5'- cGGCGAaggaUGCACAGGcccGCGCCcugcgugaGCAacGCCGc -3'
miRNA:   3'- -CCGCUg---ACGUGUUU---CGCGG--------UGU--CGGU- -5'
1083 5' -56 NC_000929.1 + 24416 0.68 0.431165
Target:  5'- gGGCGGCUGCAcCAAuaaacaguuuauuGGCGguguaacCCAC-GCCAg -3'
miRNA:   3'- -CCGCUGACGU-GUU-------------UCGC-------GGUGuCGGU- -5'
1083 5' -56 NC_000929.1 + 24421 0.68 0.403861
Target:  5'- cGGCGAUaaGguCAGAGCGCa--GGCCAu -3'
miRNA:   3'- -CCGCUGa-CguGUUUCGCGgugUCGGU- -5'
1083 5' -56 NC_000929.1 + 11503 0.69 0.37585
Target:  5'- cGCGGUUGCACugcccGAGCGCCAUcaacaGGUCAg -3'
miRNA:   3'- cCGCUGACGUGu----UUCGCGGUG-----UCGGU- -5'
1083 5' -56 NC_000929.1 + 17533 0.71 0.270268
Target:  5'- cGUGGaUG-ACAGcAGCGCCGCAGCCAu -3'
miRNA:   3'- cCGCUgACgUGUU-UCGCGGUGUCGGU- -5'
1083 5' -56 NC_000929.1 + 14446 0.71 0.263219
Target:  5'- -cUGACaGCcauACAGAGCGCCACGGCa- -3'
miRNA:   3'- ccGCUGaCG---UGUUUCGCGGUGUCGgu -5'
1083 5' -56 NC_000929.1 + 3877 0.72 0.22403
Target:  5'- aGGCGAC-GuCGCAGGGCGCgggagaGCGGCCc -3'
miRNA:   3'- -CCGCUGaC-GUGUUUCGCGg-----UGUCGGu -5'
1083 5' -56 NC_000929.1 + 32781 0.73 0.200745
Target:  5'- uGGCGGCuUGUcucgugauuACAAGGCGCCAucCGGUCAu -3'
miRNA:   3'- -CCGCUG-ACG---------UGUUUCGCGGU--GUCGGU- -5'
1083 5' -56 NC_000929.1 + 30948 0.74 0.160442
Target:  5'- aGGcCGuCUGC-CAGGGUGUUACAGCCAu -3'
miRNA:   3'- -CC-GCuGACGuGUUUCGCGGUGUCGGU- -5'
1083 5' -56 NC_000929.1 + 27190 0.77 0.104051
Target:  5'- cGGCGACUGaaauccAGUGCCGCAGUCAg -3'
miRNA:   3'- -CCGCUGACguguu-UCGCGGUGUCGGU- -5'
1083 5' -56 NC_000929.1 + 18807 1.11 0.000305
Target:  5'- aGGCGACUGCACAAAGCGCCACAGCCAg -3'
miRNA:   3'- -CCGCUGACGUGUUUCGCGGUGUCGGU- -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.