miRNA display CGI


Results 1 - 20 of 64 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
8955 3' -56.8 NC_002512.2 + 26700 0.75 0.518337
Target:  5'- uGCUGGCGGUGACcugGCUggCGUCc -3'
miRNA:   3'- gCGACCGCCGCUGucaCGAuaGCAGc -5'
8955 3' -56.8 NC_002512.2 + 56303 0.66 0.929142
Target:  5'- uGCUGGCGGCGcCGGaGCUcggCG-Ca -3'
miRNA:   3'- gCGACCGCCGCuGUCaCGAua-GCaGc -5'
8955 3' -56.8 NC_002512.2 + 71140 0.67 0.924
Target:  5'- aGCagGGCGGCcAC-GUGUUccugGUCGUCGa -3'
miRNA:   3'- gCGa-CCGCCGcUGuCACGA----UAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 88273 0.67 0.918636
Target:  5'- ---aGGUGGCGGCAG-GCg--UGUCGg -3'
miRNA:   3'- gcgaCCGCCGCUGUCaCGauaGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 86942 0.67 0.91305
Target:  5'- uCGgaGGagaCGGCGAUGGUgacGCUGUCgGUCGa -3'
miRNA:   3'- -GCgaCC---GCCGCUGUCA---CGAUAG-CAGC- -5'
8955 3' -56.8 NC_002512.2 + 22992 0.67 0.907244
Target:  5'- aCGCgGGCGGCGcUGGUGacCUAccCGUCGg -3'
miRNA:   3'- -GCGaCCGCCGCuGUCAC--GAUa-GCAGC- -5'
8955 3' -56.8 NC_002512.2 + 20299 0.67 0.907244
Target:  5'- aCG-UGGCGGUGACcGUGCcGgacgaggagcUCGUCGa -3'
miRNA:   3'- -GCgACCGCCGCUGuCACGaU----------AGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 47015 0.67 0.907244
Target:  5'- uGCUGGCGGCGG-AGcUGCUGggCGa-- -3'
miRNA:   3'- gCGACCGCCGCUgUC-ACGAUa-GCagc -5'
8955 3' -56.8 NC_002512.2 + 202363 0.68 0.888524
Target:  5'- uGUccgGGCGGCGGCGG----GUCGUCGa -3'
miRNA:   3'- gCGa--CCGCCGCUGUCacgaUAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 51928 0.68 0.887208
Target:  5'- aCGCUGGCGG-GACugaucacccaGCUGUCGgacgCGg -3'
miRNA:   3'- -GCGACCGCCgCUGuca-------CGAUAGCa---GC- -5'
8955 3' -56.8 NC_002512.2 + 36441 0.68 0.881859
Target:  5'- cCGCUcccgccaccGGCGGCcGCGGUcgcGCUcguaGUCGUCGu -3'
miRNA:   3'- -GCGA---------CCGCCGcUGUCA---CGA----UAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 79821 0.68 0.867917
Target:  5'- gGC-GGCGGCGGCGGUccccccucccGCcccGUCGUCc -3'
miRNA:   3'- gCGaCCGCCGCUGUCA----------CGa--UAGCAGc -5'
8955 3' -56.8 NC_002512.2 + 12390 0.68 0.860647
Target:  5'- uCGCcuucgGGCGGCGGCGGcgGCgccgggAUCG-CGa -3'
miRNA:   3'- -GCGa----CCGCCGCUGUCa-CGa-----UAGCaGC- -5'
8955 3' -56.8 NC_002512.2 + 26406 0.68 0.860647
Target:  5'- uGCUGGCGaCG-CAGaUGCUGUCGa-- -3'
miRNA:   3'- gCGACCGCcGCuGUC-ACGAUAGCagc -5'
8955 3' -56.8 NC_002512.2 + 6407 0.69 0.845539
Target:  5'- gGgaGGCGGCGGCGGcGCUGgggaaggcggcCGUCu -3'
miRNA:   3'- gCgaCCGCCGCUGUCaCGAUa----------GCAGc -5'
8955 3' -56.8 NC_002512.2 + 121201 0.69 0.837711
Target:  5'- gCGCUGGC--CGACAGcGCccucGUCGUCGg -3'
miRNA:   3'- -GCGACCGccGCUGUCaCGa---UAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 34627 0.69 0.837711
Target:  5'- aGCUGuaacGCGGCGAgacaCAGgagGCU-UCGUCGg -3'
miRNA:   3'- gCGAC----CGCCGCU----GUCa--CGAuAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 154826 0.69 0.82971
Target:  5'- aGC-GGCGGCGGCAGUagUGUCGg-- -3'
miRNA:   3'- gCGaCCGCCGCUGUCAcgAUAGCagc -5'
8955 3' -56.8 NC_002512.2 + 80676 0.72 0.674384
Target:  5'- cCGCggcGGCGGCGACGGggGCgagcggCGUCc -3'
miRNA:   3'- -GCGa--CCGCCGCUGUCa-CGaua---GCAGc -5'
8955 3' -56.8 NC_002512.2 + 83816 0.76 0.454176
Target:  5'- gCGCcGGCGGCGGCGGcuccggGCccggGUCGUCGc -3'
miRNA:   3'- -GCGaCCGCCGCUGUCa-----CGa---UAGCAGC- -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.