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
11094 3' -57.9 NC_002794.1 + 68471 0.66 0.878418
Target:  5'- aCGGCGCaGUGGGGCacggAGGcggccgagccggccgUGC-GGGUGAu -3'
miRNA:   3'- -GUCGCG-CACCUCG----UCC---------------ACGaCCUACU- -5'
11094 3' -57.9 NC_002794.1 + 142225 0.66 0.875603
Target:  5'- gCGGUGCGgGGAGCGGcGgagGCgGcGGUGAg -3'
miRNA:   3'- -GUCGCGCaCCUCGUC-Ca--CGaC-CUACU- -5'
11094 3' -57.9 NC_002794.1 + 117492 0.66 0.868417
Target:  5'- uGGCGUGcaGGuccucgauCAGGUGCUGGGUGc -3'
miRNA:   3'- gUCGCGCa-CCuc------GUCCACGACCUACu -5'
11094 3' -57.9 NC_002794.1 + 144838 0.66 0.853437
Target:  5'- gAGcCGC-UGGAGCGGGUGCc-GAUGc -3'
miRNA:   3'- gUC-GCGcACCUCGUCCACGacCUACu -5'
11094 3' -57.9 NC_002794.1 + 87135 0.67 0.829534
Target:  5'- gGGCGgGUGGGgguGCAGGccggGC-GGGUGGg -3'
miRNA:   3'- gUCGCgCACCU---CGUCCa---CGaCCUACU- -5'
11094 3' -57.9 NC_002794.1 + 87177 0.67 0.829534
Target:  5'- gGGCGgGUGGGgguGCAGGccggGC-GGGUGGg -3'
miRNA:   3'- gUCGCgCACCU---CGUCCa---CGaCCUACU- -5'
11094 3' -57.9 NC_002794.1 + 87219 0.67 0.829534
Target:  5'- gGGCGgGUGGGgguGCAGGccggGC-GGGUGGg -3'
miRNA:   3'- gUCGCgCACCU---CGUCCa---CGaCCUACU- -5'
11094 3' -57.9 NC_002794.1 + 87093 0.67 0.829534
Target:  5'- gGGCGgGUGGGgguGCAGGccggGC-GGGUGGg -3'
miRNA:   3'- gUCGCgCACCU---CGUCCa---CGaCCUACU- -5'
11094 3' -57.9 NC_002794.1 + 149283 0.67 0.796166
Target:  5'- gCGGCGCGgcggcucgcucacggGGGGCGGGUGUaGGuagGGc -3'
miRNA:   3'- -GUCGCGCa--------------CCUCGUCCACGaCCua-CU- -5'
11094 3' -57.9 NC_002794.1 + 98934 0.67 0.794393
Target:  5'- gGGCGCGgccgggaaggggcUGGGGCucGUGCUGGGc-- -3'
miRNA:   3'- gUCGCGC-------------ACCUCGucCACGACCUacu -5'
11094 3' -57.9 NC_002794.1 + 112349 0.68 0.786342
Target:  5'- gCGGCGcCGgcggcGGGGCGGGgagcUGCUGGAa-- -3'
miRNA:   3'- -GUCGC-GCa----CCUCGUCC----ACGACCUacu -5'
11094 3' -57.9 NC_002794.1 + 124934 0.68 0.757821
Target:  5'- -uGCGCGUGGAccucgacuucuccGU-GGUGCUGGAg-- -3'
miRNA:   3'- guCGCGCACCU-------------CGuCCACGACCUacu -5'
11094 3' -57.9 NC_002794.1 + 91130 0.68 0.739815
Target:  5'- -cGUGCGUGGAGgAGGcgcggacggugcUGCUGGGc-- -3'
miRNA:   3'- guCGCGCACCUCgUCC------------ACGACCUacu -5'
11094 3' -57.9 NC_002794.1 + 87261 0.69 0.730203
Target:  5'- gGGCGgGUGGgggugcaggccgGGCGGGUGg-GGGUGGg -3'
miRNA:   3'- gUCGCgCACC------------UCGUCCACgaCCUACU- -5'
11094 3' -57.9 NC_002794.1 + 115643 0.69 0.681091
Target:  5'- uCAGgGCGUgagccaGGAGCuGGUGCaGGcgGAa -3'
miRNA:   3'- -GUCgCGCA------CCUCGuCCACGaCCuaCU- -5'
11094 3' -57.9 NC_002794.1 + 142183 0.72 0.561091
Target:  5'- gCAGCGCGaGGAGCGGcaGUGCgGGAa-- -3'
miRNA:   3'- -GUCGCGCaCCUCGUC--CACGaCCUacu -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.