miRNA display CGI


Results 1 - 17 of 17 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
1869 5' -50.7 NC_001347.2 + 27955 0.66 0.999265
Target:  5'- gGGUgGAGAg-GGAAGGUCGcGCcGCc -3'
miRNA:   3'- gCCGgCUCUagUCUUUCAGCaUGaCG- -5'
1869 5' -50.7 NC_001347.2 + 153016 0.66 0.999265
Target:  5'- gCGGCCGAcgagagguugagGAUCaAGGcgucGUCGUACUuggGCg -3'
miRNA:   3'- -GCCGGCU------------CUAG-UCUuu--CAGCAUGA---CG- -5'
1869 5' -50.7 NC_001347.2 + 30010 0.66 0.999086
Target:  5'- aCGGCCGAGuucggccugggcuGUCuGGAAGcuuaCGUGC-GCa -3'
miRNA:   3'- -GCCGGCUC-------------UAGuCUUUCa---GCAUGaCG- -5'
1869 5' -50.7 NC_001347.2 + 96525 0.66 0.998913
Target:  5'- cCGGaggCGGGAUCGGGcgugAGGUUcugGCUGCa -3'
miRNA:   3'- -GCCg--GCUCUAGUCU----UUCAGca-UGACG- -5'
1869 5' -50.7 NC_001347.2 + 169881 0.66 0.998913
Target:  5'- aCGGgCGGGGggAGAAAGa-GUugUGCa -3'
miRNA:   3'- -GCCgGCUCUagUCUUUCagCAugACG- -5'
1869 5' -50.7 NC_001347.2 + 228419 0.66 0.998688
Target:  5'- aCGGCCGuGcGUCGGcaccugaaccAgcGUCuGUGCUGCg -3'
miRNA:   3'- -GCCGGCuC-UAGUC----------UuuCAG-CAUGACG- -5'
1869 5' -50.7 NC_001347.2 + 189620 0.66 0.998426
Target:  5'- gGGCCGGGGaCGG-GGGUUGcGCUGg -3'
miRNA:   3'- gCCGGCUCUaGUCuUUCAGCaUGACg -5'
1869 5' -50.7 NC_001347.2 + 74938 0.67 0.99812
Target:  5'- gGGcCCGuGAg-GGGGAGUCGUugggccguuACUGCu -3'
miRNA:   3'- gCC-GGCuCUagUCUUUCAGCA---------UGACG- -5'
1869 5' -50.7 NC_001347.2 + 94275 0.67 0.996889
Target:  5'- cCGGCCGAGGUCc-GGAG-CGgGCcGCg -3'
miRNA:   3'- -GCCGGCUCUAGucUUUCaGCaUGaCG- -5'
1869 5' -50.7 NC_001347.2 + 150919 0.67 0.996354
Target:  5'- uGGCCGAGuaccgCAGcGAGUU--GCUGUg -3'
miRNA:   3'- gCCGGCUCua---GUCuUUCAGcaUGACG- -5'
1869 5' -50.7 NC_001347.2 + 94319 0.68 0.992431
Target:  5'- gGGCCGucGGAUgGGggGGUCGaGCg-- -3'
miRNA:   3'- gCCGGC--UCUAgUCuuUCAGCaUGacg -5'
1869 5' -50.7 NC_001347.2 + 152766 0.68 0.992431
Target:  5'- uGGCCGAGGaguGGAAGUUGcACgcgGCg -3'
miRNA:   3'- gCCGGCUCUaguCUUUCAGCaUGa--CG- -5'
1869 5' -50.7 NC_001347.2 + 75665 0.69 0.990136
Target:  5'- aGGUCGucgaugcgcAGAUCGGAAAa--GUGCUGCu -3'
miRNA:   3'- gCCGGC---------UCUAGUCUUUcagCAUGACG- -5'
1869 5' -50.7 NC_001347.2 + 166893 0.69 0.985712
Target:  5'- aCGGCCGugcagcugcAGAUCAGcgccUCGUGCgGCa -3'
miRNA:   3'- -GCCGGC---------UCUAGUCuuucAGCAUGaCG- -5'
1869 5' -50.7 NC_001347.2 + 32542 0.71 0.966595
Target:  5'- aCGGCC-AGGUCAuccGcGAGUCGgcCUGCu -3'
miRNA:   3'- -GCCGGcUCUAGU---CuUUCAGCauGACG- -5'
1869 5' -50.7 NC_001347.2 + 149577 0.71 0.966595
Target:  5'- aCGGCCGAGAgcc---AGUCGccaccgGCUGCg -3'
miRNA:   3'- -GCCGGCUCUagucuuUCAGCa-----UGACG- -5'
1869 5' -50.7 NC_001347.2 + 69450 0.71 0.963323
Target:  5'- aGGUa-GGGUCGu-AGGUCGUACUGCg -3'
miRNA:   3'- gCCGgcUCUAGUcuUUCAGCAUGACG- -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.