miRNA display CGI


Results 1 - 20 of 33 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
27096 3' -53.1 NC_005832.1 + 5427 0.79 0.30846
Target:  5'- aGGUGGAcGAGGugGggGU-GCCCg- -3'
miRNA:   3'- aCCACCUuUUCCugCuuCAgCGGGau -5'
27096 3' -53.1 NC_005832.1 + 92456 0.67 0.889687
Target:  5'- gUGGUGGAcgacGAGGACGAcgaggaccAGUCGgaCUAc -3'
miRNA:   3'- -ACCACCUu---UUCCUGCU--------UCAGCggGAU- -5'
27096 3' -53.1 NC_005832.1 + 20696 0.67 0.889687
Target:  5'- cGGaucgGGAgcAGAGuACGAGGcCGCCCUGg -3'
miRNA:   3'- aCCa---CCU--UUUCcUGCUUCaGCGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 66180 0.67 0.903433
Target:  5'- gGGUGGGAGggacagcuagacAGGugGAuGGaCGUCCUGa -3'
miRNA:   3'- aCCACCUUU------------UCCugCU-UCaGCGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 54011 0.67 0.909919
Target:  5'- -uGUGGAGGAGGcUGggGcUGCCCg- -3'
miRNA:   3'- acCACCUUUUCCuGCuuCaGCGGGau -5'
27096 3' -53.1 NC_005832.1 + 102571 0.67 0.909919
Target:  5'- cGGUGGAGAA--ACGuaacuguuGUUGCCCUGu -3'
miRNA:   3'- aCCACCUUUUccUGCuu------CAGCGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 104170 0.66 0.922103
Target:  5'- --aUGGAu-AGGACaGAGGUUGCUCUGa -3'
miRNA:   3'- accACCUuuUCCUG-CUUCAGCGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 4519 0.66 0.927797
Target:  5'- aGGUGGAAGGGcuccucuuuGGCGuuuGcUCGCCCg- -3'
miRNA:   3'- aCCACCUUUUC---------CUGCuu-C-AGCGGGau -5'
27096 3' -53.1 NC_005832.1 + 7395 0.66 0.927797
Target:  5'- gGGUGGcu--GGACGAcgcggGGUCcguGCCCUu -3'
miRNA:   3'- aCCACCuuuuCCUGCU-----UCAG---CGGGAu -5'
27096 3' -53.1 NC_005832.1 + 89668 0.67 0.889687
Target:  5'- aGGUGGAcucgaAGGGGACGAcccUCaCCCUGu -3'
miRNA:   3'- aCCACCU-----UUUCCUGCUuc-AGcGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 79972 0.67 0.889687
Target:  5'- aGGUGGAGgaggGAGGugGggGaC-CCCa- -3'
miRNA:   3'- aCCACCUU----UUCCugCuuCaGcGGGau -5'
27096 3' -53.1 NC_005832.1 + 54697 0.68 0.867981
Target:  5'- gUGGUGGGcaccuacuccaagguGGGGACGggGUucgaCGCCUg- -3'
miRNA:   3'- -ACCACCUu--------------UUCCUGCuuCA----GCGGGau -5'
27096 3' -53.1 NC_005832.1 + 11544 0.79 0.30846
Target:  5'- cUGGUGGccAAAGG-CGggGUCGUCCUGg -3'
miRNA:   3'- -ACCACCu-UUUCCuGCuuCAGCGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 68048 0.71 0.717232
Target:  5'- aGGUGGAggaGAGGGGCGGAGgCaUCCUGa -3'
miRNA:   3'- aCCACCU---UUUCCUGCUUCaGcGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 78956 0.7 0.737993
Target:  5'- aGGcUGGAc-GGGAUGAGGUUcagGCCCUAc -3'
miRNA:   3'- aCC-ACCUuuUCCUGCUUCAG---CGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 27327 0.7 0.737993
Target:  5'- aGGcucUGGAGAuuguggGGGACGGAGUggCGUCCUAc -3'
miRNA:   3'- aCC---ACCUUU------UCCUGCUUCA--GCGGGAU- -5'
27096 3' -53.1 NC_005832.1 + 5544 0.69 0.797477
Target:  5'- cGGUGGAgacGAGGGACGGgacGGUgcacagGCCCUc -3'
miRNA:   3'- aCCACCU---UUUCCUGCU---UCAg-----CGGGAu -5'
27096 3' -53.1 NC_005832.1 + 28070 0.69 0.825124
Target:  5'- gGGUGGu-GGGGACcAAGagGCCCUu -3'
miRNA:   3'- aCCACCuuUUCCUGcUUCagCGGGAu -5'
27096 3' -53.1 NC_005832.1 + 5774 0.68 0.833962
Target:  5'- cUGGUGGAcgGGGAUcccGUgGCCCUu -3'
miRNA:   3'- -ACCACCUuuUCCUGcuuCAgCGGGAu -5'
27096 3' -53.1 NC_005832.1 + 6494 0.68 0.842597
Target:  5'- cGGcGGAugacGAGGACGggGUgucugugGCCCUGu -3'
miRNA:   3'- aCCaCCUu---UUCCUGCuuCAg------CGGGAU- -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.