miRNA display CGI


Results 1 - 16 of 16 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
1470 5' -54.3 NC_001335.1 + 9995 0.66 0.769669
Target:  5'- aUCCAacggcGGuauGCaGAUgcUGCCGCCUUGGGc -3'
miRNA:   3'- -GGGU-----UCuu-CGaCUA--GCGGCGGAACCU- -5'
1470 5' -54.3 NC_001335.1 + 22239 0.66 0.759368
Target:  5'- cCCCcAGAcGUUGAUCGaCgGCCUacaGGAc -3'
miRNA:   3'- -GGGuUCUuCGACUAGC-GgCGGAa--CCU- -5'
1470 5' -54.3 NC_001335.1 + 14539 0.66 0.759367
Target:  5'- gCCAGG-AGCccuUGAccucggacUCGCCGCCUUcGAa -3'
miRNA:   3'- gGGUUCuUCG---ACU--------AGCGGCGGAAcCU- -5'
1470 5' -54.3 NC_001335.1 + 49203 0.66 0.759367
Target:  5'- aCCGAGGAGCUGGuuaaccaccuauUCGaaGCCaucgUGGu -3'
miRNA:   3'- gGGUUCUUCGACU------------AGCggCGGa---ACCu -5'
1470 5' -54.3 NC_001335.1 + 48893 0.66 0.738377
Target:  5'- aCCgGAGAAGCUaccgcguccGGUCGCCGCg----- -3'
miRNA:   3'- -GGgUUCUUCGA---------CUAGCGGCGgaaccu -5'
1470 5' -54.3 NC_001335.1 + 17447 0.67 0.7061
Target:  5'- gCCGAuGAGCg---CGCCGCCgaUGGAg -3'
miRNA:   3'- gGGUUcUUCGacuaGCGGCGGa-ACCU- -5'
1470 5' -54.3 NC_001335.1 + 22337 0.68 0.639857
Target:  5'- cCCCGgaggGGGAGCUGAUCGaCCGgaucuucgaCCUgagcgaugagaUGGAg -3'
miRNA:   3'- -GGGU----UCUUCGACUAGC-GGC---------GGA-----------ACCU- -5'
1470 5' -54.3 NC_001335.1 + 12445 0.68 0.60649
Target:  5'- gCCAAGcAGUUGAUCGCCaCUggcggcUGGAa -3'
miRNA:   3'- gGGUUCuUCGACUAGCGGcGGa-----ACCU- -5'
1470 5' -54.3 NC_001335.1 + 28847 0.69 0.594292
Target:  5'- gCCCGccucAGAGGCUGAgagaGCCGCUgcacacaUUGGc -3'
miRNA:   3'- -GGGU----UCUUCGACUag--CGGCGG-------AACCu -5'
1470 5' -54.3 NC_001335.1 + 7142 0.69 0.550357
Target:  5'- -gCAAGAAGCUGAagGCCgaguacgGCCU-GGAc -3'
miRNA:   3'- ggGUUCUUCGACUagCGG-------CGGAaCCU- -5'
1470 5' -54.3 NC_001335.1 + 43290 0.71 0.453987
Target:  5'- gUCCAgcucgauguugaacGGAAGCUcGAUgGCCGgCUUGGGc -3'
miRNA:   3'- -GGGU--------------UCUUCGA-CUAgCGGCgGAACCU- -5'
1470 5' -54.3 NC_001335.1 + 10899 0.72 0.380825
Target:  5'- gCCAGGAGGCUGca-GCCGCUcgGGu -3'
miRNA:   3'- gGGUUCUUCGACuagCGGCGGaaCCu -5'
1470 5' -54.3 NC_001335.1 + 24866 0.73 0.371916
Target:  5'- gCCUGAGGAGCUGGacaUCGUCGCCgcuGAg -3'
miRNA:   3'- -GGGUUCUUCGACU---AGCGGCGGaacCU- -5'
1470 5' -54.3 NC_001335.1 + 40446 0.74 0.321507
Target:  5'- gCCCAGGAAGUgcuucuUGAUC-CCGuCCUUGGu -3'
miRNA:   3'- -GGGUUCUUCG------ACUAGcGGC-GGAACCu -5'
1470 5' -54.3 NC_001335.1 + 24406 0.76 0.236464
Target:  5'- aCCAAGGAGCUGAUgGCCcGUCUcGGu -3'
miRNA:   3'- gGGUUCUUCGACUAgCGG-CGGAaCCu -5'
1470 5' -54.3 NC_001335.1 + 15241 1.11 0.000914
Target:  5'- gCCCAAGAAGCUGAUCGCCGCCUUGGAc -3'
miRNA:   3'- -GGGUUCUUCGACUAGCGGCGGAACCU- -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.