miRNA display CGI


Results 1 - 20 of 133 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
11519 3' -63.1 NC_003085.1 + 40604 0.7 0.1792
Target:  5'- aCCGGGCGagGGGCcuGUGCUgacggcCGCUGCCg -3'
miRNA:   3'- -GGCCCGCcgUUCG--CGCGGa-----GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 13907 0.71 0.134031
Target:  5'- aCCGGuGCGGCGuGCGCGCgUuucggacggggcgCGC-GCCg -3'
miRNA:   3'- -GGCC-CGCCGUuCGCGCGgA-------------GCGaCGG- -5'
11519 3' -63.1 NC_003085.1 + 24709 0.71 0.141685
Target:  5'- --cGGCGGCAucGGCG-GCUUCGCgggUGCCa -3'
miRNA:   3'- ggcCCGCCGU--UCGCgCGGAGCG---ACGG- -5'
11519 3' -63.1 NC_003085.1 + 39255 0.71 0.141685
Target:  5'- uCUGGGCcGCAGcaugugcuGCGCGCCUccucuacggCGCUGCg -3'
miRNA:   3'- -GGCCCGcCGUU--------CGCGCGGA---------GCGACGg -5'
11519 3' -63.1 NC_003085.1 + 41470 0.71 0.153316
Target:  5'- -gGGGC-GCGGGUgaaguaccGCGCCagCGCUGCCu -3'
miRNA:   3'- ggCCCGcCGUUCG--------CGCGGa-GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 30009 0.7 0.157381
Target:  5'- cCUGGGCGGCcuuGGCGaCGUCgucCGCgGCUu -3'
miRNA:   3'- -GGCCCGCCGu--UCGC-GCGGa--GCGaCGG- -5'
11519 3' -63.1 NC_003085.1 + 28842 0.7 0.170609
Target:  5'- -gGGGaaGCAAGCacccGCGCCgcccgacuuccgcggCGCUGCCg -3'
miRNA:   3'- ggCCCgcCGUUCG----CGCGGa--------------GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 44948 0.7 0.173281
Target:  5'- gCCGGGCucaaacgccucguuGGCccagucgccAGCGCGCUUCGUcaccgUGCCc -3'
miRNA:   3'- -GGCCCG--------------CCGu--------UCGCGCGGAGCG-----ACGG- -5'
11519 3' -63.1 NC_003085.1 + 46709 0.7 0.178738
Target:  5'- uCCGGccaGCGGaguccuuGGGCaGCGCCUucgcgcgCGCUGCCa -3'
miRNA:   3'- -GGCC---CGCCg------UUCG-CGCGGA-------GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 26721 0.72 0.130868
Target:  5'- -aGGGCGGUGAcggcGCgGCGCCggUGCUGUCa -3'
miRNA:   3'- ggCCCGCCGUU----CG-CGCGGa-GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 43117 0.72 0.127435
Target:  5'- gCCGGGaacagccuUGGCGuagAGCGCGCCcaUGCUGCg -3'
miRNA:   3'- -GGCCC--------GCCGU---UCGCGCGGa-GCGACGg -5'
11519 3' -63.1 NC_003085.1 + 48383 0.72 0.120818
Target:  5'- cCUGaGcGCGGCGAGCaGCGCCgcaUUGuCUGCCu -3'
miRNA:   3'- -GGC-C-CGCCGUUCG-CGCGG---AGC-GACGG- -5'
11519 3' -63.1 NC_003085.1 + 40350 0.76 0.064652
Target:  5'- gUGGGCGGUggGCaaGCCgcuGCUGCCc -3'
miRNA:   3'- gGCCCGCCGuuCGcgCGGag-CGACGG- -5'
11519 3' -63.1 NC_003085.1 + 19081 0.75 0.074181
Target:  5'- gCCGGGCccGGacgGAGUGCGCCgcacccgcuUCGCUGUCa -3'
miRNA:   3'- -GGCCCG--CCg--UUCGCGCGG---------AGCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 45979 0.74 0.089809
Target:  5'- -gGGGCGGCAGauGCGCGCCUCuccccacaggGUgacgacgGCCg -3'
miRNA:   3'- ggCCCGCCGUU--CGCGCGGAG----------CGa------CGG- -5'
11519 3' -63.1 NC_003085.1 + 41044 0.74 0.094052
Target:  5'- cCUGGGCGGCuuGGCGgGCUgcuacgcgacuggggGCUGCCg -3'
miRNA:   3'- -GGCCCGCCGu-UCGCgCGGag-------------CGACGG- -5'
11519 3' -63.1 NC_003085.1 + 27704 0.74 0.094564
Target:  5'- uCUGGGCGuccgcccGCuguCGCGCCUCGUUGCUg -3'
miRNA:   3'- -GGCCCGC-------CGuucGCGCGGAGCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 18295 0.74 0.094821
Target:  5'- aCCGGGCGGU--GCaCGCCccggCGCUGgCCg -3'
miRNA:   3'- -GGCCCGCCGuuCGcGCGGa---GCGAC-GG- -5'
11519 3' -63.1 NC_003085.1 + 27015 0.73 0.100096
Target:  5'- aCGGGCcuuGGUGugccuGCGCGCUcgaCGCUGCCa -3'
miRNA:   3'- gGCCCG---CCGUu----CGCGCGGa--GCGACGG- -5'
11519 3' -63.1 NC_003085.1 + 2291 0.73 0.111488
Target:  5'- gCGGGCuccGGCAgcacGGCGCuggccuGCCUCGCcaccgGCCg -3'
miRNA:   3'- gGCCCG---CCGU----UCGCG------CGGAGCGa----CGG- -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.