miRNA display CGI


Results 1 - 20 of 21 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
12578 5' -45.8 NC_003345.1 + 71029 0.66 0.999306
Target:  5'- gUCGAaacCGGCUUCGGGcuguCGUCGUCcGGu -3'
miRNA:   3'- -AGUUc--GCCGAAGUUUu---GUAGCAGuUC- -5'
12578 5' -45.8 NC_003345.1 + 20328 0.66 0.99929
Target:  5'- aCAgcGGCGGCccCAccggaggGAGCGUCGUCGu- -3'
miRNA:   3'- aGU--UCGCCGaaGU-------UUUGUAGCAGUuc -5'
12578 5' -45.8 NC_003345.1 + 30905 0.66 0.99929
Target:  5'- aCcGGCGGCggCGAGAgGUCGaacacccUCAAGc -3'
miRNA:   3'- aGuUCGCCGaaGUUUUgUAGC-------AGUUC- -5'
12578 5' -45.8 NC_003345.1 + 14741 0.66 0.998919
Target:  5'- aCGAGUggGGCUUCAucGAGCgGUUGUaCGAGg -3'
miRNA:   3'- aGUUCG--CCGAAGU--UUUG-UAGCA-GUUC- -5'
12578 5' -45.8 NC_003345.1 + 6091 0.66 0.998665
Target:  5'- -gAAGCGGCUUCGGAAgGcUCG-CuGGa -3'
miRNA:   3'- agUUCGCCGAAGUUUUgU-AGCaGuUC- -5'
12578 5' -45.8 NC_003345.1 + 28669 0.67 0.998294
Target:  5'- gUCAAcCGGCUUCGAGucuucgggcuuugacGCAUCGagucguugugccgcgUCAAGa -3'
miRNA:   3'- -AGUUcGCCGAAGUUU---------------UGUAGC---------------AGUUC- -5'
12578 5' -45.8 NC_003345.1 + 21612 0.67 0.998002
Target:  5'- aCAcGGCGGcCUUCGAG--GUCGUCAc- -3'
miRNA:   3'- aGU-UCGCC-GAAGUUUugUAGCAGUuc -5'
12578 5' -45.8 NC_003345.1 + 34342 0.67 0.998002
Target:  5'- aUCGAGCGuGuCUUCuccGAGCGUCGUg--- -3'
miRNA:   3'- -AGUUCGC-C-GAAGu--UUUGUAGCAguuc -5'
12578 5' -45.8 NC_003345.1 + 47542 0.67 0.998002
Target:  5'- -aAGGCGGuCUUCuacgguGAGCGauUCGUCAAc -3'
miRNA:   3'- agUUCGCC-GAAGu-----UUUGU--AGCAGUUc -5'
12578 5' -45.8 NC_003345.1 + 8214 0.67 0.997082
Target:  5'- -gGAGaGGCUUCGG---GUCGUCGGGg -3'
miRNA:   3'- agUUCgCCGAAGUUuugUAGCAGUUC- -5'
12578 5' -45.8 NC_003345.1 + 64659 0.68 0.995835
Target:  5'- aUCGGGCGGCUU---GACGUaauccguucCGUCAAu -3'
miRNA:   3'- -AGUUCGCCGAAguuUUGUA---------GCAGUUc -5'
12578 5' -45.8 NC_003345.1 + 69808 0.68 0.995835
Target:  5'- -aGAGCGGCUUCGGG-----GUCGAGa -3'
miRNA:   3'- agUUCGCCGAAGUUUuguagCAGUUC- -5'
12578 5' -45.8 NC_003345.1 + 26883 0.68 0.99318
Target:  5'- aUCAGGC-GCUUCAGcuCGUCGUUc-- -3'
miRNA:   3'- -AGUUCGcCGAAGUUuuGUAGCAGuuc -5'
12578 5' -45.8 NC_003345.1 + 33627 0.69 0.990758
Target:  5'- --cAGCGGCggCAAuauCGUCGUCGu- -3'
miRNA:   3'- aguUCGCCGaaGUUuu-GUAGCAGUuc -5'
12578 5' -45.8 NC_003345.1 + 32576 0.7 0.976412
Target:  5'- cUCGGGUGGCUcaccgcaUCGAGGuCggCGUCGGGg -3'
miRNA:   3'- -AGUUCGCCGA-------AGUUUU-GuaGCAGUUC- -5'
12578 5' -45.8 NC_003345.1 + 72034 0.71 0.967306
Target:  5'- uUCGAGCauCUUCAGAACAgaaUCGUCAc- -3'
miRNA:   3'- -AGUUCGccGAAGUUUUGU---AGCAGUuc -5'
12578 5' -45.8 NC_003345.1 + 24198 0.71 0.959729
Target:  5'- cUCAGGCGGCaagcaGGAGCAUUGgCGAGc -3'
miRNA:   3'- -AGUUCGCCGaag--UUUUGUAGCaGUUC- -5'
12578 5' -45.8 NC_003345.1 + 22864 0.71 0.958497
Target:  5'- aCGAGCGGCaggcccggcaggaagCGGGAC-UCGUCGAGu -3'
miRNA:   3'- aGUUCGCCGaa-------------GUUUUGuAGCAGUUC- -5'
12578 5' -45.8 NC_003345.1 + 43831 0.77 0.747078
Target:  5'- aUCGAGgGGgUUCgAGAACAUCGUgGAGa -3'
miRNA:   3'- -AGUUCgCCgAAG-UUUUGUAGCAgUUC- -5'
12578 5' -45.8 NC_003345.1 + 34847 0.84 0.395131
Target:  5'- gCGAGCGGCcaUCAcggGAACGUCGUCGGGg -3'
miRNA:   3'- aGUUCGCCGa-AGU---UUUGUAGCAGUUC- -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.