miRNA display CGI


Results 1 - 20 of 23 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
7193 5' -56.5 NC_001900.1 + 30992 0.66 0.639898
Target:  5'- --aGCCCgGugGUUUcGguGUCGACGGc -3'
miRNA:   3'- uagCGGGgCugCGGA-CguUAGUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 35295 0.66 0.628885
Target:  5'- -aCG-CCCGACGCCcacagaUGuCGAcCAGCGGg -3'
miRNA:   3'- uaGCgGGGCUGCGG------AC-GUUaGUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 11054 0.66 0.617876
Target:  5'- gGUCGCCaCCGggcgcgaaacauGCGCCUGguGUCuGAUGc -3'
miRNA:   3'- -UAGCGG-GGC------------UGCGGACguUAG-UUGCc -5'
7193 5' -56.5 NC_001900.1 + 13230 0.66 0.606879
Target:  5'- -cCGCUCCGAagcaggaGCCUGCGAcCGA-GGa -3'
miRNA:   3'- uaGCGGGGCUg------CGGACGUUaGUUgCC- -5'
7193 5' -56.5 NC_001900.1 + 12997 0.67 0.574055
Target:  5'- cGUCGCUCUGAC-CaacGUggUCAGCGGc -3'
miRNA:   3'- -UAGCGGGGCUGcGga-CGuuAGUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 21365 0.68 0.499475
Target:  5'- --aGUCCCGACG-CUGCGugCGAUGGg -3'
miRNA:   3'- uagCGGGGCUGCgGACGUuaGUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 40397 0.68 0.498438
Target:  5'- -aCGCCuuGGCGCUcaccgagagcccgUGCAGgaacacCAGCGGg -3'
miRNA:   3'- uaGCGGggCUGCGG-------------ACGUUa-----GUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 37456 0.68 0.489153
Target:  5'- --aGCCuuGAgcUGCUUGCGGUCAucgaACGGg -3'
miRNA:   3'- uagCGGggCU--GCGGACGUUAGU----UGCC- -5'
7193 5' -56.5 NC_001900.1 + 10608 0.68 0.478932
Target:  5'- -cCGCCU-GACGCCUgaGCAGUaugCAGCGGc -3'
miRNA:   3'- uaGCGGGgCUGCGGA--CGUUA---GUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 35181 0.71 0.341176
Target:  5'- uUCGCCCCGACGCCaccgcccuccaugagGCGcAUgAACGu -3'
miRNA:   3'- uAGCGGGGCUGCGGa--------------CGU-UAgUUGCc -5'
7193 5' -56.5 NC_001900.1 + 28236 0.72 0.293653
Target:  5'- --gGCCUCGucgguaGCGUCgUGCAGUCGACGGa -3'
miRNA:   3'- uagCGGGGC------UGCGG-ACGUUAGUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 27147 1.09 0.000628
Target:  5'- gAUCGCCCCGACGCCUGCAAUCAACGGg -3'
miRNA:   3'- -UAGCGGGGCUGCGGACGUUAGUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 15419 0.66 0.639898
Target:  5'- cGUCGaCCCgGACGCCUaCGAgggCGugGa -3'
miRNA:   3'- -UAGC-GGGgCUGCGGAcGUUa--GUugCc -5'
7193 5' -56.5 NC_001900.1 + 25538 0.75 0.17868
Target:  5'- -cCGCCCCGGaagagGCCUGCAGccUCAcCGGg -3'
miRNA:   3'- uaGCGGGGCUg----CGGACGUU--AGUuGCC- -5'
7193 5' -56.5 NC_001900.1 + 45532 0.7 0.374358
Target:  5'- --gGCCCCGAgCGCC-GC-GUCGAUGGc -3'
miRNA:   3'- uagCGGGGCU-GCGGaCGuUAGUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 20531 0.69 0.439154
Target:  5'- gGUUGCCCUGgagauGCGCgUGCAG-CAGCGa -3'
miRNA:   3'- -UAGCGGGGC-----UGCGgACGUUaGUUGCc -5'
7193 5' -56.5 NC_001900.1 + 32973 0.68 0.478932
Target:  5'- aAUCGCCCCGcCGaaCUUGuCGAUCAGCu- -3'
miRNA:   3'- -UAGCGGGGCuGC--GGAC-GUUAGUUGcc -5'
7193 5' -56.5 NC_001900.1 + 39166 0.68 0.478932
Target:  5'- cAUCaGCUCCGcaguCGCCUGC-AUCAGCa- -3'
miRNA:   3'- -UAG-CGGGGCu---GCGGACGuUAGUUGcc -5'
7193 5' -56.5 NC_001900.1 + 4720 0.68 0.489153
Target:  5'- uUCGCggauacaUCGACGCCgucgucGUGGUCGACGGg -3'
miRNA:   3'- uAGCGg------GGCUGCGGa-----CGUUAGUUGCC- -5'
7193 5' -56.5 NC_001900.1 + 47574 0.67 0.53099
Target:  5'- cGUCGUCCau-CGCCUGCuucaggguGUCGuaGCGGg -3'
miRNA:   3'- -UAGCGGGgcuGCGGACGu-------UAGU--UGCC- -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.