miRNA display CGI


Results 1 - 20 of 27 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
9353 3' -48 NC_002512.2 + 166612 0.73 0.983318
Target:  5'- gGGGUCccaggg---CUCCGCGUcCGGGa -3'
miRNA:   3'- -CCCAGauauauuuaGAGGCGCA-GCCC- -5'
9353 3' -48 NC_002512.2 + 220015 0.71 0.996154
Target:  5'- cGGGUCgagaggccgCUCCGUcUCGGGg -3'
miRNA:   3'- -CCCAGauauauuuaGAGGCGcAGCCC- -5'
9353 3' -48 NC_002512.2 + 220164 0.7 0.998785
Target:  5'- gGGcGUCgug------CUCUGCGUCGGGa -3'
miRNA:   3'- -CC-CAGauauauuuaGAGGCGCAGCCC- -5'
9353 3' -48 NC_002512.2 + 219037 0.69 0.999453
Target:  5'- uGGUCUAcGUc-GUCggCCGCGgcgCGGGg -3'
miRNA:   3'- cCCAGAUaUAuuUAGa-GGCGCa--GCCC- -5'
9353 3' -48 NC_002512.2 + 196400 0.68 0.999766
Target:  5'- cGGGUCUGgcgcgggGAcgCggggggcggcggCCGgGUCGGGa -3'
miRNA:   3'- -CCCAGAUaua----UUuaGa-----------GGCgCAGCCC- -5'
9353 3' -48 NC_002512.2 + 145513 0.68 0.999766
Target:  5'- cGGGgCUGcuccggcUCUgCGCGUCGGGc -3'
miRNA:   3'- -CCCaGAUauauuu-AGAgGCGCAGCCC- -5'
9353 3' -48 NC_002512.2 + 27024 0.68 0.999776
Target:  5'- uGGUCUAUAaacGGAUCcaCCGCuGUCGGu -3'
miRNA:   3'- cCCAGAUAUa--UUUAGa-GGCG-CAGCCc -5'
9353 3' -48 NC_002512.2 + 160493 0.68 0.999776
Target:  5'- uGGGUUcc-----AUCUCCGCGgcgcCGGGa -3'
miRNA:   3'- -CCCAGauauauuUAGAGGCGCa---GCCC- -5'
9353 3' -48 NC_002512.2 + 38979 0.68 0.999824
Target:  5'- cGGGUCUGUGUAAAag--CGUGUCGuuuGGa -3'
miRNA:   3'- -CCCAGAUAUAUUUagagGCGCAGC---CC- -5'
9353 3' -48 NC_002512.2 + 166046 0.67 0.999893
Target:  5'- gGGGUC-AUcaAGGUCuUCUGCG-CGGGc -3'
miRNA:   3'- -CCCAGaUAuaUUUAG-AGGCGCaGCCC- -5'
9353 3' -48 NC_002512.2 + 111705 0.67 0.999893
Target:  5'- gGGGUCgcggAUGacgacgGAGUCUCCG-G-CGGGc -3'
miRNA:   3'- -CCCAGa---UAUa-----UUUAGAGGCgCaGCCC- -5'
9353 3' -48 NC_002512.2 + 33432 0.67 0.999916
Target:  5'- uGGGUCgucGUGaucggagaacugcGAUCUCCG-GUCGuGGg -3'
miRNA:   3'- -CCCAGauaUAU-------------UUAGAGGCgCAGC-CC- -5'
9353 3' -48 NC_002512.2 + 120671 0.67 0.999918
Target:  5'- cGGGUCgauaucucgGUGAGUUUCUGCuccgagCGGGc -3'
miRNA:   3'- -CCCAGaua------UAUUUAGAGGCGca----GCCC- -5'
9353 3' -48 NC_002512.2 + 191723 0.67 0.999918
Target:  5'- --cUUUAaGUGGAcCUCCGCGUCGGu -3'
miRNA:   3'- cccAGAUaUAUUUaGAGGCGCAGCCc -5'
9353 3' -48 NC_002512.2 + 205126 0.67 0.999937
Target:  5'- cGGGUCUuc----GUCUCCGa--CGGGa -3'
miRNA:   3'- -CCCAGAuauauuUAGAGGCgcaGCCC- -5'
9353 3' -48 NC_002512.2 + 184046 0.67 0.999937
Target:  5'- uGGUCgaguucGUGUGAGa--CCGCGUCGGa -3'
miRNA:   3'- cCCAGa-----UAUAUUUagaGGCGCAGCCc -5'
9353 3' -48 NC_002512.2 + 54445 0.66 0.999973
Target:  5'- cGGGUCU----GAAUCaCCGaCG-CGGGa -3'
miRNA:   3'- -CCCAGAuauaUUUAGaGGC-GCaGCCC- -5'
9353 3' -48 NC_002512.2 + 54251 0.66 0.999973
Target:  5'- cGGGUCU----GAAUCaCCGaCG-CGGGa -3'
miRNA:   3'- -CCCAGAuauaUUUAGaGGC-GCaGCCC- -5'
9353 3' -48 NC_002512.2 + 224112 0.66 0.999973
Target:  5'- cGGUCgugGUGAccAUCUcggccguggacCCGCGcCGGGa -3'
miRNA:   3'- cCCAGauaUAUU--UAGA-----------GGCGCaGCCC- -5'
9353 3' -48 NC_002512.2 + 208893 0.66 0.99998
Target:  5'- gGGGcCgg---GAAUCcCCGCG-CGGGa -3'
miRNA:   3'- -CCCaGauauaUUUAGaGGCGCaGCCC- -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.