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
12132 3' -61.9 NC_003309.1 + 36842 0.66 0.421247
Target:  5'- uCGGAUAUgGGCgGCCuuUaagGGUGGCCa -3'
miRNA:   3'- -GCCUAUG-CCGgCGGcuAgg-CCGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 10893 0.66 0.411463
Target:  5'- gCGGucGCGGUCGCCGcgcguUCCGcucgcucGCGcGCCu -3'
miRNA:   3'- -GCCuaUGCCGGCGGCu----AGGC-------CGC-CGG- -5'
12132 3' -61.9 NC_003309.1 + 43538 0.66 0.386358
Target:  5'- ----cACGcGCaCGCCG--UCGGCGGCCa -3'
miRNA:   3'- gccuaUGC-CG-GCGGCuaGGCCGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 16007 0.67 0.35343
Target:  5'- uCGGAUGCGaGCgCGaauUGGUCCGucggcGCGGCUg -3'
miRNA:   3'- -GCCUAUGC-CG-GCg--GCUAGGC-----CGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 44534 0.67 0.336954
Target:  5'- cCGGGUugaguucGCaGCCGauGAaaCGGCGGCCg -3'
miRNA:   3'- -GCCUA-------UGcCGGCggCUagGCCGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 46336 0.68 0.330067
Target:  5'- gCGGAcgUACGcguGCCGCCGuaccgCCGaGCacGGCCu -3'
miRNA:   3'- -GCCU--AUGC---CGGCGGCua---GGC-CG--CCGG- -5'
12132 3' -61.9 NC_003309.1 + 41292 0.68 0.322536
Target:  5'- gGGAUgggaACGGCU--UGAcgCUGGCGGCCg -3'
miRNA:   3'- gCCUA----UGCCGGcgGCUa-GGCCGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 9426 0.68 0.305705
Target:  5'- -cGAgcCGGCCGUCGAcgagagaccgcgcaUgCGGCGGUCg -3'
miRNA:   3'- gcCUauGCCGGCGGCU--------------AgGCCGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 49951 0.68 0.300718
Target:  5'- --------aCCGUCGAUUCGGCGGCCg -3'
miRNA:   3'- gccuaugccGGCGGCUAGGCCGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 15328 0.68 0.293703
Target:  5'- uCGGcgAUGGCUGCUgcgcgucgGAUgucugcucgaagCCGGUGGCCu -3'
miRNA:   3'- -GCCuaUGCCGGCGG--------CUA------------GGCCGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 44924 0.68 0.293703
Target:  5'- --cGUGCGGCCGCCucgggcGUCCaGCGGUa -3'
miRNA:   3'- gccUAUGCCGGCGGc-----UAGGcCGCCGg -5'
12132 3' -61.9 NC_003309.1 + 45271 0.69 0.268211
Target:  5'- gCGGAUuuggucgaaugcCGGCCGCCGcgUgcgccucgaauacguCGGCGGCa -3'
miRNA:   3'- -GCCUAu-----------GCCGGCGGCuaG---------------GCCGCCGg -5'
12132 3' -61.9 NC_003309.1 + 15019 0.69 0.260541
Target:  5'- aCGGAaggucagcgACGGCCGCCccUUCGaCGGCCc -3'
miRNA:   3'- -GCCUa--------UGCCGGCGGcuAGGCcGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 31511 0.69 0.248156
Target:  5'- -----cCGGCCaGCCGA--CGGCGGCCu -3'
miRNA:   3'- gccuauGCCGG-CGGCUagGCCGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 8712 0.7 0.236261
Target:  5'- --cAUGCGGUCGCCGA-CCGuCGGCUc -3'
miRNA:   3'- gccUAUGCCGGCGGCUaGGCcGCCGG- -5'
12132 3' -61.9 NC_003309.1 + 8546 0.7 0.236261
Target:  5'- gGGAguUAC-GCCGCCGG--CGGCGGCa -3'
miRNA:   3'- gCCU--AUGcCGGCGGCUagGCCGCCGg -5'
12132 3' -61.9 NC_003309.1 + 22492 0.7 0.224848
Target:  5'- uGGucgacgGCGGCCaccGCCGAcgCGGCGGCa -3'
miRNA:   3'- gCCua----UGCCGG---CGGCUagGCCGCCGg -5'
12132 3' -61.9 NC_003309.1 + 22665 0.71 0.198354
Target:  5'- aGGcgGCGGCaccauCGCCcacgCCGGCGGCg -3'
miRNA:   3'- gCCuaUGCCG-----GCGGcua-GGCCGCCGg -5'
12132 3' -61.9 NC_003309.1 + 45864 0.72 0.157493
Target:  5'- gCGGcgACGGCCGUCGAUCacgaGGUucucGCCc -3'
miRNA:   3'- -GCCuaUGCCGGCGGCUAGg---CCGc---CGG- -5'
12132 3' -61.9 NC_003309.1 + 7835 0.74 0.127725
Target:  5'- cCGGA-ACGGCCGCCaGUcagcCCGGCGagcGCCa -3'
miRNA:   3'- -GCCUaUGCCGGCGGcUA----GGCCGC---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.