miRNA display CGI


Results 1 - 20 of 40 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
8002 3' -61.4 NC_001973.1 + 119117 0.66 0.714814
Target:  5'- uCGUCGGCCGcgcuGGUC-AUCGGGcugUUCGAc -3'
miRNA:   3'- -GCGGCCGGCc---CCAGcUAGCCC---AAGUU- -5'
8002 3' -61.4 NC_001973.1 + 150928 0.66 0.695602
Target:  5'- gCGUCcGCCGGGGUCG-UUGGaGgUCAGa -3'
miRNA:   3'- -GCGGcCGGCCCCAGCuAGCC-CaAGUU- -5'
8002 3' -61.4 NC_001973.1 + 146122 0.66 0.685918
Target:  5'- aGCCGGCuCGGGaG-CGGgcCGGGgUCAAg -3'
miRNA:   3'- gCGGCCG-GCCC-CaGCUa-GCCCaAGUU- -5'
8002 3' -61.4 NC_001973.1 + 132451 0.66 0.676194
Target:  5'- gCGCCGG-CGGGGcgCGGccucgUCGGGcUCGc -3'
miRNA:   3'- -GCGGCCgGCCCCa-GCU-----AGCCCaAGUu -5'
8002 3' -61.4 NC_001973.1 + 130981 0.67 0.656653
Target:  5'- gCGUCGG-CGaGGGUCGAUUGGaGgUCAAc -3'
miRNA:   3'- -GCGGCCgGC-CCCAGCUAGCC-CaAGUU- -5'
8002 3' -61.4 NC_001973.1 + 2625 0.67 0.646852
Target:  5'- gCGCCGGCCGcGGcCGAUCGuGaGaUCAu -3'
miRNA:   3'- -GCGGCCGGCcCCaGCUAGC-C-CaAGUu -5'
8002 3' -61.4 NC_001973.1 + 20991 0.67 0.617412
Target:  5'- gCGUCGGCUaGGGUCaAUCGaGUUCAAg -3'
miRNA:   3'- -GCGGCCGGcCCCAGcUAGCcCAAGUU- -5'
8002 3' -61.4 NC_001973.1 + 129332 0.67 0.607611
Target:  5'- gCGCCGGCaaGGGUCGAUaGaGG-UCAAg -3'
miRNA:   3'- -GCGGCCGgcCCCAGCUAgC-CCaAGUU- -5'
8002 3' -61.4 NC_001973.1 + 127464 0.68 0.549369
Target:  5'- uGCCGGCaaGGGUCaAUCGaGUUCAAa -3'
miRNA:   3'- gCGGCCGgcCCCAGcUAGCcCAAGUU- -5'
8002 3' -61.4 NC_001973.1 + 72150 0.68 0.549369
Target:  5'- gCGUCGGCaaaGGUCGAUCGaGUUCAAa -3'
miRNA:   3'- -GCGGCCGgccCCAGCUAGCcCAAGUU- -5'
8002 3' -61.4 NC_001973.1 + 160827 0.69 0.539812
Target:  5'- gCGUCGGCCGGaGUCGAucaUCGaGG-UCGAg -3'
miRNA:   3'- -GCGGCCGGCCcCAGCU---AGC-CCaAGUU- -5'
8002 3' -61.4 NC_001973.1 + 129010 0.69 0.5115
Target:  5'- gCGUCGGCCaGGGUCGAUaaaGG-UCAAa -3'
miRNA:   3'- -GCGGCCGGcCCCAGCUAgc-CCaAGUU- -5'
8002 3' -61.4 NC_001973.1 + 127542 0.69 0.492971
Target:  5'- uGCCGGCaaGGGUCGAUgGaGG-UCAAg -3'
miRNA:   3'- gCGGCCGgcCCCAGCUAgC-CCaAGUU- -5'
8002 3' -61.4 NC_001973.1 + 151095 0.7 0.448085
Target:  5'- gCGCCcGCCGGGGUCGuUUGaGGUUa-- -3'
miRNA:   3'- -GCGGcCGGCCCCAGCuAGC-CCAAguu -5'
8002 3' -61.4 NC_001973.1 + 145999 0.71 0.434204
Target:  5'- aGCCGGCuCGGGGagcggguccgccggcUCGAgcgCGGG-UCGAc -3'
miRNA:   3'- gCGGCCG-GCCCC---------------AGCUa--GCCCaAGUU- -5'
8002 3' -61.4 NC_001973.1 + 12141 0.71 0.430772
Target:  5'- gCGUCuGCCGGGGUCaAUCGaGUUCGAg -3'
miRNA:   3'- -GCGGcCGGCCCCAGcUAGCcCAAGUU- -5'
8002 3' -61.4 NC_001973.1 + 150986 0.71 0.413858
Target:  5'- gCGUCGGCCGGGGUCGuuaaaGGUUa-- -3'
miRNA:   3'- -GCGGCCGGCCCCAGCuagc-CCAAguu -5'
8002 3' -61.4 NC_001973.1 + 124798 0.72 0.350476
Target:  5'- cCGCCggcgagGGCCGGGGccUCGAUCGGacggUCGAg -3'
miRNA:   3'- -GCGG------CCGGCCCC--AGCUAGCCca--AGUU- -5'
8002 3' -61.4 NC_001973.1 + 130726 0.72 0.350476
Target:  5'- gCGUCGGCCGGGG-CaAUCGaGUUCAAg -3'
miRNA:   3'- -GCGGCCGGCCCCaGcUAGCcCAAGUU- -5'
8002 3' -61.4 NC_001973.1 + 151380 0.72 0.343054
Target:  5'- gCGUCGGCCGGGGUCGucUGaGGUUa-- -3'
miRNA:   3'- -GCGGCCGGCCCCAGCuaGC-CCAAguu -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.