miRNA display CGI


Results 1 - 20 of 28 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
8179 3' -62.7 NC_001978.2 + 25313 0.66 0.338204
Target:  5'- --aGGCCGa-CGGAGCugacgaCGUCGCCCGu -3'
miRNA:   3'- gacUCGGCagGCCUCG------GCAGCGGGCc -5'
8179 3' -62.7 NC_001978.2 + 4878 0.66 0.338204
Target:  5'- aUGAGaaG-CCGGGGCaaCGUCGCCgucCGGc -3'
miRNA:   3'- gACUCggCaGGCCUCG--GCAGCGG---GCC- -5'
8179 3' -62.7 NC_001978.2 + 19868 0.66 0.336641
Target:  5'- uUGGcGCCGUgCCgGGGGCCGacgcgauucacgCGCuCCGGa -3'
miRNA:   3'- gACU-CGGCA-GG-CCUCGGCa-----------GCG-GGCC- -5'
8179 3' -62.7 NC_001978.2 + 15992 0.66 0.322809
Target:  5'- -aGGGCCGgagggUCCGGAGgguCCGgccgGUCCGGa -3'
miRNA:   3'- gaCUCGGC-----AGGCCUC---GGCag--CGGGCC- -5'
8179 3' -62.7 NC_001978.2 + 9154 0.66 0.307942
Target:  5'- gCUuAGCCucagCCGGAGUCG-CGCCCa- -3'
miRNA:   3'- -GAcUCGGca--GGCCUCGGCaGCGGGcc -5'
8179 3' -62.7 NC_001978.2 + 35980 0.66 0.300707
Target:  5'- cCUGGGgCGacaccCCGGAgacuGCCGcCGaCCCGGg -3'
miRNA:   3'- -GACUCgGCa----GGCCU----CGGCaGC-GGGCC- -5'
8179 3' -62.7 NC_001978.2 + 25759 0.66 0.300707
Target:  5'- ---uGCCGUCCGGGGUgCGUC-UCUGGu -3'
miRNA:   3'- gacuCGGCAGGCCUCG-GCAGcGGGCC- -5'
8179 3' -62.7 NC_001978.2 + 30701 0.66 0.300707
Target:  5'- -aGcGCCGcaacguccgCCGGAGUCGucUCGCCCuGGg -3'
miRNA:   3'- gaCuCGGCa--------GGCCUCGGC--AGCGGG-CC- -5'
8179 3' -62.7 NC_001978.2 + 8175 0.66 0.292901
Target:  5'- gUGA-CCGUCCGGGcuuucguGCU-UCGCCUGGg -3'
miRNA:   3'- gACUcGGCAGGCCU-------CGGcAGCGGGCC- -5'
8179 3' -62.7 NC_001978.2 + 17920 0.67 0.279792
Target:  5'- -cGaAGCCGUCguauGAGCCGUU-CCCGGg -3'
miRNA:   3'- gaC-UCGGCAGgc--CUCGGCAGcGGGCC- -5'
8179 3' -62.7 NC_001978.2 + 18304 0.67 0.279792
Target:  5'- gUGAGauuugagCCGGAGCCGgcaUGCCCGa -3'
miRNA:   3'- gACUCggca---GGCCUCGGCa--GCGGGCc -5'
8179 3' -62.7 NC_001978.2 + 38646 0.67 0.273082
Target:  5'- ---cGCCGUCCcGAacGCCGacgUGCCCGGc -3'
miRNA:   3'- gacuCGGCAGGcCU--CGGCa--GCGGGCC- -5'
8179 3' -62.7 NC_001978.2 + 31 0.67 0.266502
Target:  5'- gUGAGCCG-CCGGAcCCaggCGCCCc- -3'
miRNA:   3'- gACUCGGCaGGCCUcGGca-GCGGGcc -5'
8179 3' -62.7 NC_001978.2 + 27299 0.67 0.259413
Target:  5'- -cGAGCaCGcCCGGgaagaaaccggcgAGCgcaucggaCGUCGCCCGGu -3'
miRNA:   3'- gaCUCG-GCaGGCC-------------UCG--------GCAGCGGGCC- -5'
8179 3' -62.7 NC_001978.2 + 10984 0.68 0.223991
Target:  5'- -cGAGCCGUUCGGAagGaagaCGUCuUCCGGg -3'
miRNA:   3'- gaCUCGGCAGGCCU--Cg---GCAGcGGGCC- -5'
8179 3' -62.7 NC_001978.2 + 34605 0.68 0.21841
Target:  5'- -gGAGCCGUCCGGcagGGUCGga--CCGGc -3'
miRNA:   3'- gaCUCGGCAGGCC---UCGGCagcgGGCC- -5'
8179 3' -62.7 NC_001978.2 + 36751 0.68 0.217859
Target:  5'- --aGGCCGuucaggacguccuUCCGGAGCCGaCGCCgGa -3'
miRNA:   3'- gacUCGGC-------------AGGCCUCGGCaGCGGgCc -5'
8179 3' -62.7 NC_001978.2 + 37269 0.69 0.20238
Target:  5'- aUG-GCgCGUUCGGAaggaaGCuUGUCGCCCGGu -3'
miRNA:   3'- gACuCG-GCAGGCCU-----CG-GCAGCGGGCC- -5'
8179 3' -62.7 NC_001978.2 + 4174 0.7 0.16891
Target:  5'- -aGAGCCGgacgaagagCCGGAGCCGgaagGCaagCCGGa -3'
miRNA:   3'- gaCUCGGCa--------GGCCUCGGCag--CG---GGCC- -5'
8179 3' -62.7 NC_001978.2 + 1071 0.7 0.164554
Target:  5'- gCUGggaAGCCuUCCGG-GUCGUCGCCCc- -3'
miRNA:   3'- -GAC---UCGGcAGGCCuCGGCAGCGGGcc -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.