miRNA display CGI


Results 1 - 20 of 53 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
23332 5' -58.1 NC_005259.1 + 6066 1.08 0.001041
Target:  5'- gCGCGGUGAUCGCCGCCGAACAGGACGc -3'
miRNA:   3'- -GCGCCACUAGCGGCGGCUUGUCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 39990 0.8 0.097562
Target:  5'- uCGaCGGgcUGAUCGCCGCCGAGCaugagggucugaccGGGACGu -3'
miRNA:   3'- -GC-GCC--ACUAGCGGCGGCUUG--------------UCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 55079 0.74 0.24526
Target:  5'- aGCGGcuuucuucugcUGAUCGCUGCCGAugGcGGCGa -3'
miRNA:   3'- gCGCC-----------ACUAGCGGCGGCUugUcCUGC- -5'
23332 5' -58.1 NC_005259.1 + 53742 0.74 0.257643
Target:  5'- uCGCcgGGUGuccacucggUGCCGCCGAACAGGAa- -3'
miRNA:   3'- -GCG--CCACua-------GCGGCGGCUUGUCCUgc -5'
23332 5' -58.1 NC_005259.1 + 66925 0.72 0.312307
Target:  5'- gCGCGGUGcUCGaCCGgggUGAGCGGGACa -3'
miRNA:   3'- -GCGCCACuAGC-GGCg--GCUUGUCCUGc -5'
23332 5' -58.1 NC_005259.1 + 26826 0.72 0.342778
Target:  5'- gGCGGUGGU-GCCGgggcggucugcUCGGGCAGGAUGc -3'
miRNA:   3'- gCGCCACUAgCGGC-----------GGCUUGUCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 43024 0.71 0.350723
Target:  5'- -cCGGcGAU-GCCGCCGAGCAGGcCGc -3'
miRNA:   3'- gcGCCaCUAgCGGCGGCUUGUCCuGC- -5'
23332 5' -58.1 NC_005259.1 + 29945 0.71 0.358798
Target:  5'- aCGCGGcccGGUCGCgGCUGGugGGG-CGg -3'
miRNA:   3'- -GCGCCa--CUAGCGgCGGCUugUCCuGC- -5'
23332 5' -58.1 NC_005259.1 + 43962 0.71 0.367002
Target:  5'- gGCGG-GGcCGCCGCCuGACcgAGGGCGg -3'
miRNA:   3'- gCGCCaCUaGCGGCGGcUUG--UCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 45395 0.71 0.367002
Target:  5'- -uCGG-GGUCGCCGCCGAGCGcgcuGAUGg -3'
miRNA:   3'- gcGCCaCUAGCGGCGGCUUGUc---CUGC- -5'
23332 5' -58.1 NC_005259.1 + 43734 0.71 0.375334
Target:  5'- gGCGGcca-UGCCGCCGAGCcGGGCa -3'
miRNA:   3'- gCGCCacuaGCGGCGGCUUGuCCUGc -5'
23332 5' -58.1 NC_005259.1 + 23315 0.71 0.383793
Target:  5'- gCGCGGUcGGU-GUCGCCGAGCcGGAUu -3'
miRNA:   3'- -GCGCCA-CUAgCGGCGGCUUGuCCUGc -5'
23332 5' -58.1 NC_005259.1 + 23705 0.71 0.383793
Target:  5'- cCGCGucGUGAUCG-CGCCGGACGGuuCGg -3'
miRNA:   3'- -GCGC--CACUAGCgGCGGCUUGUCcuGC- -5'
23332 5' -58.1 NC_005259.1 + 26417 0.71 0.392378
Target:  5'- gGCGGUGc-CGCCguagaacgcaccGCCGAGCGGG-CGg -3'
miRNA:   3'- gCGCCACuaGCGG------------CGGCUUGUCCuGC- -5'
23332 5' -58.1 NC_005259.1 + 4347 0.71 0.392378
Target:  5'- uCGCGGUGAUgaG-CGCCGGACGGcACGc -3'
miRNA:   3'- -GCGCCACUAg-CgGCGGCUUGUCcUGC- -5'
23332 5' -58.1 NC_005259.1 + 22988 0.71 0.392378
Target:  5'- -cCGGUGucgaCGCCGCCGAggucACcgAGGACGg -3'
miRNA:   3'- gcGCCACua--GCGGCGGCU----UG--UCCUGC- -5'
23332 5' -58.1 NC_005259.1 + 14528 0.7 0.418869
Target:  5'- aCGCGGUGcguuUCGgUGCCGAguucguccgGCAGGcCGa -3'
miRNA:   3'- -GCGCCACu---AGCgGCGGCU---------UGUCCuGC- -5'
23332 5' -58.1 NC_005259.1 + 43067 0.7 0.425204
Target:  5'- gGuCGGUGAggaacgcgagcccgUUGCCGCCGAACAGucccGugGu -3'
miRNA:   3'- gC-GCCACU--------------AGCGGCGGCUUGUC----CugC- -5'
23332 5' -58.1 NC_005259.1 + 28512 0.7 0.427937
Target:  5'- gGCGG-GAUCGacCCGCCGAGgaAGGAUu -3'
miRNA:   3'- gCGCCaCUAGC--GGCGGCUUg-UCCUGc -5'
23332 5' -58.1 NC_005259.1 + 17473 0.7 0.427937
Target:  5'- cCGUGGUGA-CGCCcgGCCaugcGGGCAaGGACGg -3'
miRNA:   3'- -GCGCCACUaGCGG--CGG----CUUGU-CCUGC- -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.