miRNA display CGI


Results 1 - 20 of 50 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
18753 3' -59.6 NC_004683.1 + 24344 0.71 0.257441
Target:  5'- -gCGCGGCguaGGACUCGGCGuaGGcgCGGg -3'
miRNA:   3'- gaGCGCCGg--CUUGAGCCGC--CCuaGCU- -5'
18753 3' -59.6 NC_004683.1 + 27313 0.68 0.419408
Target:  5'- -cCGCaGGaUCGAaucGCUCGGCGGcAUCGAg -3'
miRNA:   3'- gaGCG-CC-GGCU---UGAGCCGCCcUAGCU- -5'
18753 3' -59.6 NC_004683.1 + 54050 0.67 0.456553
Target:  5'- -cCGCGG-UGAGCUUGGCGacGUCGAa -3'
miRNA:   3'- gaGCGCCgGCUUGAGCCGCccUAGCU- -5'
18753 3' -59.6 NC_004683.1 + 14291 0.66 0.550038
Target:  5'- gUCGCGGCCacgcaccagcaguuuGAucucaacCUCGGUGGGGcccugcagcgcgUCGAc -3'
miRNA:   3'- gAGCGCCGG---------------CUu------GAGCCGCCCU------------AGCU- -5'
18753 3' -59.6 NC_004683.1 + 54011 0.69 0.33431
Target:  5'- cCUCGuCGGCC-AugUCcuuugccaucucgGGCGGGAUCGc -3'
miRNA:   3'- -GAGC-GCCGGcUugAG-------------CCGCCCUAGCu -5'
18753 3' -59.6 NC_004683.1 + 1437 1.08 0.000525
Target:  5'- gCUCGCGGCCGAACUCGGCGGGAUCGAg -3'
miRNA:   3'- -GAGCGCCGGCUUGAGCCGCCCUAGCU- -5'
18753 3' -59.6 NC_004683.1 + 10124 0.77 0.115125
Target:  5'- -cCGCGGCCGAacgGCUCGGCGGcg-UGAg -3'
miRNA:   3'- gaGCGCCGGCU---UGAGCCGCCcuaGCU- -5'
18753 3' -59.6 NC_004683.1 + 41007 0.74 0.175979
Target:  5'- -gCGCGGUC-AGCUCGGCGcccGGGUCGGa -3'
miRNA:   3'- gaGCGCCGGcUUGAGCCGC---CCUAGCU- -5'
18753 3' -59.6 NC_004683.1 + 49091 0.74 0.180609
Target:  5'- uUCcCGGUCGGGCUugagggCGGCGGGAUCGc -3'
miRNA:   3'- gAGcGCCGGCUUGA------GCCGCCCUAGCu -5'
18753 3' -59.6 NC_004683.1 + 23252 0.68 0.418503
Target:  5'- aCUgGUGGCgGggUcgguggaUCGGUGGGGUCa- -3'
miRNA:   3'- -GAgCGCCGgCuuG-------AGCCGCCCUAGcu -5'
18753 3' -59.6 NC_004683.1 + 51680 0.69 0.375653
Target:  5'- aUCGC-GUCGAGCUCGGCcuGGcgacGGUCGAg -3'
miRNA:   3'- gAGCGcCGGCUUGAGCCG--CC----CUAGCU- -5'
18753 3' -59.6 NC_004683.1 + 44637 0.69 0.375653
Target:  5'- -aCGcCGGCCGAA-UCGGCGaGGAacUUGAa -3'
miRNA:   3'- gaGC-GCCGGCUUgAGCCGC-CCU--AGCU- -5'
18753 3' -59.6 NC_004683.1 + 23777 0.71 0.277044
Target:  5'- -cCGCGGCgGAACgucgagaacccgUCGGCGcGGAUCu- -3'
miRNA:   3'- gaGCGCCGgCUUG------------AGCCGC-CCUAGcu -5'
18753 3' -59.6 NC_004683.1 + 54461 0.68 0.392782
Target:  5'- gUUGCGGCCGGGCaUGcGuuGGGUCGGg -3'
miRNA:   3'- gAGCGCCGGCUUGaGC-CgcCCUAGCU- -5'
18753 3' -59.6 NC_004683.1 + 56828 0.7 0.297819
Target:  5'- gUCGUGGCCGAgaucccaugGCUCGuCGGGcUUGAu -3'
miRNA:   3'- gAGCGCCGGCU---------UGAGCcGCCCuAGCU- -5'
18753 3' -59.6 NC_004683.1 + 26511 0.69 0.36728
Target:  5'- -cUGCGGCC-AACUCGGCGGcaccggCGGg -3'
miRNA:   3'- gaGCGCCGGcUUGAGCCGCCcua---GCU- -5'
18753 3' -59.6 NC_004683.1 + 27757 0.68 0.401535
Target:  5'- --aGUGGCCGAGCUCG-UGGGcgCa- -3'
miRNA:   3'- gagCGCCGGCUUGAGCcGCCCuaGcu -5'
18753 3' -59.6 NC_004683.1 + 4036 0.68 0.428523
Target:  5'- -gUGCGcGCCGccCUCGGgugcgagcaCGGGGUCGAc -3'
miRNA:   3'- gaGCGC-CGGCuuGAGCC---------GCCCUAGCU- -5'
18753 3' -59.6 NC_004683.1 + 24401 0.7 0.305008
Target:  5'- uCUCGCGGgUGAACUCGGCG---UCGc -3'
miRNA:   3'- -GAGCGCCgGCUUGAGCCGCccuAGCu -5'
18753 3' -59.6 NC_004683.1 + 53690 0.69 0.350922
Target:  5'- aUCGC-GCCGcAGCUCGGCGGcGAagacgCGGc -3'
miRNA:   3'- gAGCGcCGGC-UUGAGCCGCC-CUa----GCU- -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.