miRNA display CGI


Results 1 - 20 of 24 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
7195 5' -58.8 NC_001900.1 + 23608 0.66 0.513658
Target:  5'- -gGCUCaGGCCGGUgCGACGACcaaGGa-- -3'
miRNA:   3'- gaCGAG-CCGGCCGaGUUGCUG---CCaga -5'
7195 5' -58.8 NC_001900.1 + 26886 0.66 0.513657
Target:  5'- -cGCaaCGGCCGGaaccgUCGccguCGGCGGUCUg -3'
miRNA:   3'- gaCGa-GCCGGCCg----AGUu---GCUGCCAGA- -5'
7195 5' -58.8 NC_001900.1 + 23588 0.66 0.513657
Target:  5'- -cGCgccuaCGGUCGGCaUCAcCGACGGggUCUa -3'
miRNA:   3'- gaCGa----GCCGGCCG-AGUuGCUGCC--AGA- -5'
7195 5' -58.8 NC_001900.1 + 1615 0.66 0.493194
Target:  5'- gCUuCUCGGCCGGUggCGACaccccCGGUCa -3'
miRNA:   3'- -GAcGAGCCGGCCGa-GUUGcu---GCCAGa -5'
7195 5' -58.8 NC_001900.1 + 48438 0.66 0.483104
Target:  5'- -cGCUC--CgGGCUCGACcaGACGGUCUc -3'
miRNA:   3'- gaCGAGccGgCCGAGUUG--CUGCCAGA- -5'
7195 5' -58.8 NC_001900.1 + 45444 0.66 0.473114
Target:  5'- aCUGCUCGGUcagCGGCUUgcgGGCGuucaGGUUg -3'
miRNA:   3'- -GACGAGCCG---GCCGAG---UUGCug--CCAGa -5'
7195 5' -58.8 NC_001900.1 + 45684 0.66 0.473113
Target:  5'- -gGC-CGGCCGGcCUCAccacaccuuucGCGugGGcCa -3'
miRNA:   3'- gaCGaGCCGGCC-GAGU-----------UGCugCCaGa -5'
7195 5' -58.8 NC_001900.1 + 43313 0.66 0.470136
Target:  5'- uUGCUCacGCUGGCUCccucacgucgggccGAcCGugGGUCUg -3'
miRNA:   3'- gACGAGc-CGGCCGAG--------------UU-GCugCCAGA- -5'
7195 5' -58.8 NC_001900.1 + 34018 0.67 0.44379
Target:  5'- -aGUUCGGCCGGCguauguGCaGCGGUg- -3'
miRNA:   3'- gaCGAGCCGGCCGagu---UGcUGCCAga -5'
7195 5' -58.8 NC_001900.1 + 42644 0.67 0.415516
Target:  5'- uCUGCUUGGCCGcgagcaccuGCUCGACGccccUGGUg- -3'
miRNA:   3'- -GACGAGCCGGC---------CGAGUUGCu---GCCAga -5'
7195 5' -58.8 NC_001900.1 + 7108 0.68 0.40634
Target:  5'- -gGCuUCGGCCcggacucGCUCAACGucuccACGGUCa -3'
miRNA:   3'- gaCG-AGCCGGc------CGAGUUGC-----UGCCAGa -5'
7195 5' -58.8 NC_001900.1 + 30464 0.68 0.396394
Target:  5'- gUGCUcguacggcaccaaCGGCCGGCUC-ACGuCGGg-- -3'
miRNA:   3'- gACGA-------------GCCGGCCGAGuUGCuGCCaga -5'
7195 5' -58.8 NC_001900.1 + 33299 0.68 0.387489
Target:  5'- -cGCgUCGGCCGGCgCAGgcCGcaccuccACGGUCUg -3'
miRNA:   3'- gaCG-AGCCGGCCGaGUU--GC-------UGCCAGA- -5'
7195 5' -58.8 NC_001900.1 + 21585 0.68 0.370938
Target:  5'- -cGCcgaCGGCCGGCUCAAgGccguGCGGcUCg -3'
miRNA:   3'- gaCGa--GCCGGCCGAGUUgC----UGCC-AGa -5'
7195 5' -58.8 NC_001900.1 + 31611 0.68 0.370938
Target:  5'- -gGUUCGGCCGGUUCGGgcCGACcGGa-- -3'
miRNA:   3'- gaCGAGCCGGCCGAGUU--GCUG-CCaga -5'
7195 5' -58.8 NC_001900.1 + 4820 0.68 0.365812
Target:  5'- aCUGCUCGGguCUGGUUCugcagacggcagccuGguACGGCGGUCg -3'
miRNA:   3'- -GACGAGCC--GGCCGAG---------------U--UGCUGCCAGa -5'
7195 5' -58.8 NC_001900.1 + 2355 0.69 0.354044
Target:  5'- -aGUUgGGCCGGCUCGaaGCGuCGG-Ca -3'
miRNA:   3'- gaCGAgCCGGCCGAGU--UGCuGCCaGa -5'
7195 5' -58.8 NC_001900.1 + 10502 0.69 0.329736
Target:  5'- -gGcCUCGGCCuGCUgGgcACGAUGGUCg -3'
miRNA:   3'- gaC-GAGCCGGcCGAgU--UGCUGCCAGa -5'
7195 5' -58.8 NC_001900.1 + 19289 0.7 0.269012
Target:  5'- aUGCcaagacggugaacuUCGGCCGGgUCuACGGCGGUg- -3'
miRNA:   3'- gACG--------------AGCCGGCCgAGuUGCUGCCAga -5'
7195 5' -58.8 NC_001900.1 + 3786 0.7 0.268338
Target:  5'- -gGCgucgucaccuucgCGGUCGGCgugaccUCGACGGCGGUCa -3'
miRNA:   3'- gaCGa------------GCCGGCCG------AGUUGCUGCCAGa -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.