miRNA display CGI


Results 1 - 20 of 47 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
26031 3' -51.8 NC_005342.2 + 26827 0.66 0.849218
Target:  5'- --aGUUGCGCGcGCUcGUUCAGgGcGCu -3'
miRNA:   3'- acaCGACGCGCuCGA-CAAGUUgUaCG- -5'
26031 3' -51.8 NC_005342.2 + 29168 0.66 0.849218
Target:  5'- --gGCcGCGCGAuaaGCgcgGUUCAGCGaugGCg -3'
miRNA:   3'- acaCGaCGCGCU---CGa--CAAGUUGUa--CG- -5'
26031 3' -51.8 NC_005342.2 + 5528 0.66 0.849218
Target:  5'- --gGCUugGCGCGAGUgcagaccGUUCAGCucgauuGUGCg -3'
miRNA:   3'- acaCGA--CGCGCUCGa------CAAGUUG------UACG- -5'
26031 3' -51.8 NC_005342.2 + 5068 0.66 0.849218
Target:  5'- gGUG-UGCGaCGAGCaUGUUgAACA-GCu -3'
miRNA:   3'- aCACgACGC-GCUCG-ACAAgUUGUaCG- -5'
26031 3' -51.8 NC_005342.2 + 33321 0.66 0.840149
Target:  5'- --aGCUGCGCGAaauGCgccgCAACAUcaGCg -3'
miRNA:   3'- acaCGACGCGCU---CGacaaGUUGUA--CG- -5'
26031 3' -51.8 NC_005342.2 + 3269 0.66 0.840149
Target:  5'- gGUGCUGCaGUcGGCcgc-CGACGUGCg -3'
miRNA:   3'- aCACGACG-CGcUCGacaaGUUGUACG- -5'
26031 3' -51.8 NC_005342.2 + 11260 0.66 0.840149
Target:  5'- --cGUUGcCGCGcGCUGUUgAAC-UGCg -3'
miRNA:   3'- acaCGAC-GCGCuCGACAAgUUGuACG- -5'
26031 3' -51.8 NC_005342.2 + 36785 0.66 0.839229
Target:  5'- cGUGC-GCGCGGGUcGcgagaaguggauuUUCAACAcGCa -3'
miRNA:   3'- aCACGaCGCGCUCGaC-------------AAGUUGUaCG- -5'
26031 3' -51.8 NC_005342.2 + 7483 0.66 0.83084
Target:  5'- gGU-CUGCGCGAugcGCUcGaUCAGCAUcGCg -3'
miRNA:   3'- aCAcGACGCGCU---CGA-CaAGUUGUA-CG- -5'
26031 3' -51.8 NC_005342.2 + 21646 0.66 0.83084
Target:  5'- -aUGCUGCGCGcGCaGaUCGGCcauuUGCu -3'
miRNA:   3'- acACGACGCGCuCGaCaAGUUGu---ACG- -5'
26031 3' -51.8 NC_005342.2 + 46606 0.66 0.83084
Target:  5'- aGUGCcgcgaGCGCcuGCUGUUCAuGC-UGCa -3'
miRNA:   3'- aCACGa----CGCGcuCGACAAGU-UGuACG- -5'
26031 3' -51.8 NC_005342.2 + 6673 0.66 0.821301
Target:  5'- cGUGCgggGCGCauuggcgacGAGCcaugcGUgCAACGUGCu -3'
miRNA:   3'- aCACGa--CGCG---------CUCGa----CAaGUUGUACG- -5'
26031 3' -51.8 NC_005342.2 + 20331 0.66 0.821301
Target:  5'- cUGUGCc-CGUGAauGCUGgcaaCGGCAUGCa -3'
miRNA:   3'- -ACACGacGCGCU--CGACaa--GUUGUACG- -5'
26031 3' -51.8 NC_005342.2 + 29132 0.66 0.811544
Target:  5'- -cUGCcGCGCGGGCU--UCGAUA-GCa -3'
miRNA:   3'- acACGaCGCGCUCGAcaAGUUGUaCG- -5'
26031 3' -51.8 NC_005342.2 + 21786 0.66 0.80158
Target:  5'- aGUGCcGCGCGAGUgg--CAGCugaaaGCg -3'
miRNA:   3'- aCACGaCGCGCUCGacaaGUUGua---CG- -5'
26031 3' -51.8 NC_005342.2 + 1475 0.66 0.80158
Target:  5'- cGaaCUGCGCGAGCgacgGcgagUCGGCcUGCa -3'
miRNA:   3'- aCacGACGCGCUCGa---Ca---AGUUGuACG- -5'
26031 3' -51.8 NC_005342.2 + 3491 0.67 0.791421
Target:  5'- --aGCUGCuGCG-GCUGaUCGGCGUaaaGCg -3'
miRNA:   3'- acaCGACG-CGCuCGACaAGUUGUA---CG- -5'
26031 3' -51.8 NC_005342.2 + 28406 0.67 0.764186
Target:  5'- cGUGCUGCugccagaucGCGAGCagcacgacuucCGGCAUGCc -3'
miRNA:   3'- aCACGACG---------CGCUCGacaa-------GUUGUACG- -5'
26031 3' -51.8 NC_005342.2 + 33670 0.67 0.74909
Target:  5'- --gGCgaacgGCGcCGcGCUGaUCGACAUGCu -3'
miRNA:   3'- acaCGa----CGC-GCuCGACaAGUUGUACG- -5'
26031 3' -51.8 NC_005342.2 + 19365 0.67 0.74909
Target:  5'- cGUGCgGCaCGAGCgc-UCgAGCGUGCa -3'
miRNA:   3'- aCACGaCGcGCUCGacaAG-UUGUACG- -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.