miRNA display CGI


Results 1 - 20 of 56 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
28130 3' -60.4 NC_005887.1 + 27162 0.66 0.394456
Target:  5'- uCGAcGCGCGUgUCgaaccagCGCAGCAAGCg -3'
miRNA:   3'- -GCU-CGCGCAgGGacg----GCGUCGUUCGg -5'
28130 3' -60.4 NC_005887.1 + 345 0.66 0.376775
Target:  5'- gCGAGC-CGUCgCaUGUgCGCGGUGAGCUg -3'
miRNA:   3'- -GCUCGcGCAGgG-ACG-GCGUCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 14683 0.66 0.376775
Target:  5'- uGAGCGCG-CCCU--CGaCGGCGccgacGGCCg -3'
miRNA:   3'- gCUCGCGCaGGGAcgGC-GUCGU-----UCGG- -5'
28130 3' -60.4 NC_005887.1 + 9822 0.66 0.368137
Target:  5'- gCGAaCGCGUCgCaGCCGguCAGCGcGGCCa -3'
miRNA:   3'- -GCUcGCGCAGgGaCGGC--GUCGU-UCGG- -5'
28130 3' -60.4 NC_005887.1 + 33918 0.66 0.368137
Target:  5'- gGAGUgaagccuucGCGUCgaCCUGCCGacggcgcuCGGCGAGCa -3'
miRNA:   3'- gCUCG---------CGCAG--GGACGGC--------GUCGUUCGg -5'
28130 3' -60.4 NC_005887.1 + 5434 0.66 0.368137
Target:  5'- -cGGCGCGaccacgccgCCCgcuggcacuccUGCCGCAuccaccacgacGCAGGCCg -3'
miRNA:   3'- gcUCGCGCa--------GGG-----------ACGGCGU-----------CGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 42029 0.66 0.368137
Target:  5'- gCGAGCGCG-CCgC-GCaCGCAccacGCGAGCa -3'
miRNA:   3'- -GCUCGCGCaGG-GaCG-GCGU----CGUUCGg -5'
28130 3' -60.4 NC_005887.1 + 8773 0.66 0.359636
Target:  5'- aCGaAGCGCuuaCC-GCCGCGGCGGaucGCCg -3'
miRNA:   3'- -GC-UCGCGcagGGaCGGCGUCGUU---CGG- -5'
28130 3' -60.4 NC_005887.1 + 26486 0.66 0.359636
Target:  5'- aGcGCGCGuUCCCgcgcgGCCGCcAGCucGaCCa -3'
miRNA:   3'- gCuCGCGC-AGGGa----CGGCG-UCGuuC-GG- -5'
28130 3' -60.4 NC_005887.1 + 30992 0.66 0.359636
Target:  5'- cCGAGCGCG-CUgUGCacaaGGCGAuGCCg -3'
miRNA:   3'- -GCUCGCGCaGGgACGgcg-UCGUU-CGG- -5'
28130 3' -60.4 NC_005887.1 + 18765 0.66 0.359636
Target:  5'- uGuGCGUGUCCUUGCC-CuGC--GCCg -3'
miRNA:   3'- gCuCGCGCAGGGACGGcGuCGuuCGG- -5'
28130 3' -60.4 NC_005887.1 + 16928 0.66 0.359636
Target:  5'- uCGAGC-CGUCCgC-GCCGCGGUAcaCCu -3'
miRNA:   3'- -GCUCGcGCAGG-GaCGGCGUCGUucGG- -5'
28130 3' -60.4 NC_005887.1 + 40104 0.66 0.359636
Target:  5'- uCGGGCGUaggCCg-GCCGCcuCGAGCCg -3'
miRNA:   3'- -GCUCGCGca-GGgaCGGCGucGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 17789 0.66 0.351273
Target:  5'- cCGAGCGUcuugaagaacGgcaCCUUGuuGUAGCcGGCCg -3'
miRNA:   3'- -GCUCGCG----------Ca--GGGACggCGUCGuUCGG- -5'
28130 3' -60.4 NC_005887.1 + 21667 0.66 0.350444
Target:  5'- aCGGGCGUGUCgCUgacgucgggggcaGCUGCAaacgguGCGAGCg -3'
miRNA:   3'- -GCUCGCGCAGgGA-------------CGGCGU------CGUUCGg -5'
28130 3' -60.4 NC_005887.1 + 26298 0.67 0.343049
Target:  5'- uCGAGCGgauCGgaCCCgugcGCCaGCuGCAGGCCg -3'
miRNA:   3'- -GCUCGC---GCa-GGGa---CGG-CGuCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 3090 0.67 0.343049
Target:  5'- cCGAGCaUGgCUUUGcCCGCGGCGcuGGCCg -3'
miRNA:   3'- -GCUCGcGCaGGGAC-GGCGUCGU--UCGG- -5'
28130 3' -60.4 NC_005887.1 + 24419 0.67 0.334964
Target:  5'- aCGAGCuCGUUCgUG-CGCAcGCAGGUCg -3'
miRNA:   3'- -GCUCGcGCAGGgACgGCGU-CGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 34395 0.67 0.334964
Target:  5'- cCGGGCGCGaggCCCgGCCugcaauCAGuCGAGCUc -3'
miRNA:   3'- -GCUCGCGCa--GGGaCGGc-----GUC-GUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 11374 0.67 0.334964
Target:  5'- -cGGCGC-UCgCUGCCG-AGCcGGCCg -3'
miRNA:   3'- gcUCGCGcAGgGACGGCgUCGuUCGG- -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.