miRNA display CGI


Results 1 - 20 of 46 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
12130 5' -54.9 NC_003309.1 + 12566 0.66 0.784435
Target:  5'- -cUCGGGCGagccaagCGUGCCGuccuuuCGcGCGCCc -3'
miRNA:   3'- gcAGCUUGCa------GUACGGCu-----GCuCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 22491 0.66 0.784435
Target:  5'- gGUCGAcgGCGgccaccGCCGACGcGGCGgCa -3'
miRNA:   3'- gCAGCU--UGCagua--CGGCUGC-UCGCgG- -5'
12130 5' -54.9 NC_003309.1 + 10652 0.66 0.784435
Target:  5'- cCG-CGuACGgCAUGCCcGCGAugcgcGCGCCg -3'
miRNA:   3'- -GCaGCuUGCaGUACGGcUGCU-----CGCGG- -5'
12130 5' -54.9 NC_003309.1 + 43349 0.66 0.77557
Target:  5'- -uUCGAGCGUCuugacgaucucucgGCCGACuAG-GCCg -3'
miRNA:   3'- gcAGCUUGCAGua------------CGGCUGcUCgCGG- -5'
12130 5' -54.9 NC_003309.1 + 10346 0.66 0.774577
Target:  5'- -cUUGAuCGUCuccUCGACGAGCGCUc -3'
miRNA:   3'- gcAGCUuGCAGuacGGCUGCUCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 554 0.66 0.772588
Target:  5'- uGUCGggUGUUuucggcuuugcGCCGACcaGGCGCUg -3'
miRNA:   3'- gCAGCuuGCAGua---------CGGCUGc-UCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 5149 0.66 0.764576
Target:  5'- gCGUCGccGCG-CGccGCCG-CGAGCGCa -3'
miRNA:   3'- -GCAGCu-UGCaGUa-CGGCuGCUCGCGg -5'
12130 5' -54.9 NC_003309.1 + 45736 0.66 0.764576
Target:  5'- gGUCGuacAGCGg-GUGCUucggguccguGACGAGCGUCa -3'
miRNA:   3'- gCAGC---UUGCagUACGG----------CUGCUCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 16935 0.66 0.754441
Target:  5'- --cCGAACGUCGcgaucgcGCCGACaGcgacgagugcGGCGCCg -3'
miRNA:   3'- gcaGCUUGCAGUa------CGGCUG-C----------UCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 34524 0.66 0.743153
Target:  5'- cCGUCG-AUGUgGgcgGCCGuCGAaucgauuGCGCCg -3'
miRNA:   3'- -GCAGCuUGCAgUa--CGGCuGCU-------CGCGG- -5'
12130 5' -54.9 NC_003309.1 + 10395 0.67 0.733818
Target:  5'- -cUCGAuCGcCcUGCgcuuUGGCGAGCGCCg -3'
miRNA:   3'- gcAGCUuGCaGuACG----GCUGCUCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 30157 0.67 0.723351
Target:  5'- aCG-CGAACGUCcgGaCGGCGcaggggauauGCGCCc -3'
miRNA:   3'- -GCaGCUUGCAGuaCgGCUGCu---------CGCGG- -5'
12130 5' -54.9 NC_003309.1 + 15420 0.67 0.723351
Target:  5'- uGUCcGGCGccggaacaccuUCGcGCCGACGAGauCGCCa -3'
miRNA:   3'- gCAGcUUGC-----------AGUaCGGCUGCUC--GCGG- -5'
12130 5' -54.9 NC_003309.1 + 44317 0.67 0.717027
Target:  5'- aCGUCGGugACGgcugccgagaacgauUCGuuuugcuucUGCCGcuuugcACGAGCGCCg -3'
miRNA:   3'- -GCAGCU--UGC---------------AGU---------ACGGC------UGCUCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 42660 0.67 0.712795
Target:  5'- aG-CGAACGg---GCCGGCGAugGCGUCc -3'
miRNA:   3'- gCaGCUUGCaguaCGGCUGCU--CGCGG- -5'
12130 5' -54.9 NC_003309.1 + 1299 0.67 0.702162
Target:  5'- --aUGAGCGgc-UGUCGACGcGCGCCc -3'
miRNA:   3'- gcaGCUUGCaguACGGCUGCuCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 10473 0.67 0.702162
Target:  5'- -aUCGcGCG-CAUGCCG-CGAGUucgGCCu -3'
miRNA:   3'- gcAGCuUGCaGUACGGCuGCUCG---CGG- -5'
12130 5' -54.9 NC_003309.1 + 46338 0.67 0.702162
Target:  5'- aCG-CGGACGUacgCGUGCCGcCGuacCGCCg -3'
miRNA:   3'- -GCaGCUUGCA---GUACGGCuGCuc-GCGG- -5'
12130 5' -54.9 NC_003309.1 + 5666 0.68 0.669906
Target:  5'- gCGUCGaAGCGUCGcuUGCggugaUGACGuugcugggaAGCGCCc -3'
miRNA:   3'- -GCAGC-UUGCAGU--ACG-----GCUGC---------UCGCGG- -5'
12130 5' -54.9 NC_003309.1 + 23593 0.68 0.669906
Target:  5'- ---gGAugGUCGUugagGCUGACGAucgcGCGCCc -3'
miRNA:   3'- gcagCUugCAGUA----CGGCUGCU----CGCGG- -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.