miRNA display CGI


Results 1 - 20 of 32 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
26310 5' -55.7 NC_005345.2 + 23876 0.66 0.665139
Target:  5'- cCGGGUcuuacgccgacGGGaGUUGAGCAGguGC-CGc -3'
miRNA:   3'- aGUCCA-----------UCCaCAGCUCGUCguCGaGC- -5'
26310 5' -55.7 NC_005345.2 + 16820 0.66 0.665139
Target:  5'- -gAGGUGauccGGU-UCGAGCAGgacCGGCUCGu -3'
miRNA:   3'- agUCCAU----CCAcAGCUCGUC---GUCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 31956 0.66 0.654034
Target:  5'- gCGGGUgcGGGUG-CGGGU-GCGGCUgGu -3'
miRNA:   3'- aGUCCA--UCCACaGCUCGuCGUCGAgC- -5'
26310 5' -55.7 NC_005345.2 + 48897 0.66 0.654034
Target:  5'- --cGGcgAGGUG-CGGGCGGCgauGGCUCc -3'
miRNA:   3'- aguCCa-UCCACaGCUCGUCG---UCGAGc -5'
26310 5' -55.7 NC_005345.2 + 20685 0.66 0.642908
Target:  5'- aUCAGGUcuucuUGUCGuuGCcgAGCAGCUCGc -3'
miRNA:   3'- -AGUCCAucc--ACAGCu-CG--UCGUCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 43141 0.66 0.609511
Target:  5'- aCAcGGU-GGUGUCGGGCuucuucGC-GCUCGu -3'
miRNA:   3'- aGU-CCAuCCACAGCUCGu-----CGuCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 30268 0.66 0.609511
Target:  5'- gCAGGccGGgcucGUCGAGCccgAGCAGC-CGa -3'
miRNA:   3'- aGUCCauCCa---CAGCUCG---UCGUCGaGC- -5'
26310 5' -55.7 NC_005345.2 + 31102 0.67 0.576293
Target:  5'- cUCGGGUucGGGU-UCGAGguGCAcggGUUCGu -3'
miRNA:   3'- -AGUCCA--UCCAcAGCUCguCGU---CGAGC- -5'
26310 5' -55.7 NC_005345.2 + 4261 0.67 0.576293
Target:  5'- cUCGGcgaacaccGgcGGUG-CGGGCAGCucgGGCUCGg -3'
miRNA:   3'- -AGUC--------CauCCACaGCUCGUCG---UCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 35935 0.67 0.565303
Target:  5'- cCGGGgcgcgGGGUGUgcucgccgcgCGGGCuGCcGCUCGg -3'
miRNA:   3'- aGUCCa----UCCACA----------GCUCGuCGuCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 4123 0.67 0.554368
Target:  5'- --cGGUuGGcGuUCGAGCGGCuGCUCGc -3'
miRNA:   3'- aguCCAuCCaC-AGCUCGUCGuCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 18493 0.67 0.554368
Target:  5'- cCGGGUacccGGGUcgagGUCGAGCGaguacGCGGCgUCGg -3'
miRNA:   3'- aGUCCA----UCCA----CAGCUCGU-----CGUCG-AGC- -5'
26310 5' -55.7 NC_005345.2 + 7251 0.68 0.543496
Target:  5'- cCAGGgcGacGaCGAGCAGCuGCUCGa -3'
miRNA:   3'- aGUCCauCcaCaGCUCGUCGuCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 21629 0.68 0.543496
Target:  5'- aUCGGGcGGGaGaUCGAuccuCAGCGGCUCGg -3'
miRNA:   3'- -AGUCCaUCCaC-AGCUc---GUCGUCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 42577 0.68 0.543496
Target:  5'- aCAGG-GGGUcGcCGGGCGGCAGgaUCGa -3'
miRNA:   3'- aGUCCaUCCA-CaGCUCGUCGUCg-AGC- -5'
26310 5' -55.7 NC_005345.2 + 35033 0.68 0.543496
Target:  5'- gCGGGaccgguGGUGUCGAGCAGU-GCgCGc -3'
miRNA:   3'- aGUCCau----CCACAGCUCGUCGuCGaGC- -5'
26310 5' -55.7 NC_005345.2 + 9351 0.68 0.543496
Target:  5'- gCAuGGUGGcUG-CGGGCGGCcgGGCUCGa -3'
miRNA:   3'- aGU-CCAUCcACaGCUCGUCG--UCGAGC- -5'
26310 5' -55.7 NC_005345.2 + 43069 0.68 0.532695
Target:  5'- --cGGUcGuGUcGUCGGGCAGCAGCcacUCGg -3'
miRNA:   3'- aguCCAuC-CA-CAGCUCGUCGUCG---AGC- -5'
26310 5' -55.7 NC_005345.2 + 5554 0.68 0.511334
Target:  5'- uUCGGGUcGGUGUgCGGGUgggaGGCGGgUCa -3'
miRNA:   3'- -AGUCCAuCCACA-GCUCG----UCGUCgAGc -5'
26310 5' -55.7 NC_005345.2 + 4156 0.68 0.500787
Target:  5'- gUCGaGcGGGUGUCGAcGCGGCAggcGCUCa -3'
miRNA:   3'- -AGUcCaUCCACAGCU-CGUCGU---CGAGc -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.