miRNA display CGI


Results 1 - 20 of 27 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
8196 3' -61.4 NC_001978.2 + 40549 0.66 0.332906
Target:  5'- --aAGGGCGCCcggguGACGCUGUgaugaagugGCGUgaaGUCu -3'
miRNA:   3'- gagUCCCGCGG-----CUGCGACG---------CGCG---UAG- -5'
8196 3' -61.4 NC_001978.2 + 31929 0.66 0.332906
Target:  5'- --uGGGGCGCUucAUGgUGCGCGCucuUCg -3'
miRNA:   3'- gagUCCCGCGGc-UGCgACGCGCGu--AG- -5'
8196 3' -61.4 NC_001978.2 + 97 0.66 0.332109
Target:  5'- --gGGGGCGCCuggguccGGCgGCUcaccuaGCGCGCGUUu -3'
miRNA:   3'- gagUCCCGCGG-------CUG-CGA------CGCGCGUAG- -5'
8196 3' -61.4 NC_001978.2 + 34702 0.66 0.324213
Target:  5'- gCUCAGucGGCGUCGGCucgaacccggcaaGCUGgGCGUucaGUCg -3'
miRNA:   3'- -GAGUC--CCGCGGCUG-------------CGACgCGCG---UAG- -5'
8196 3' -61.4 NC_001978.2 + 4999 0.66 0.320318
Target:  5'- gUCAGGGaccgaagcucagcgGUCGcACGCUcGCGCGCcUCa -3'
miRNA:   3'- gAGUCCCg-------------CGGC-UGCGA-CGCGCGuAG- -5'
8196 3' -61.4 NC_001978.2 + 4324 0.66 0.302111
Target:  5'- uUCaAGGGUGCCGACG--GCGaaacgaagcucaCGCGUCg -3'
miRNA:   3'- gAG-UCCCGCGGCUGCgaCGC------------GCGUAG- -5'
8196 3' -61.4 NC_001978.2 + 18105 0.66 0.302111
Target:  5'- aCUCc-GGCGCCGACGCUGa-CGguUg -3'
miRNA:   3'- -GAGucCCGCGGCUGCGACgcGCguAg -5'
8196 3' -61.4 NC_001978.2 + 37872 0.66 0.294763
Target:  5'- --gGGGGCGCCGucccguacaACGUcGCGCGUgagcggGUCg -3'
miRNA:   3'- gagUCCCGCGGC---------UGCGaCGCGCG------UAG- -5'
8196 3' -61.4 NC_001978.2 + 29800 0.67 0.287556
Target:  5'- --aAGGGuCGCCccCGCUuuGCGCAUCa -3'
miRNA:   3'- gagUCCC-GCGGcuGCGAcgCGCGUAG- -5'
8196 3' -61.4 NC_001978.2 + 19879 0.67 0.287556
Target:  5'- -cCGGGG-GCCGACGCgauucaCGCGC-UCc -3'
miRNA:   3'- gaGUCCCgCGGCUGCGac----GCGCGuAG- -5'
8196 3' -61.4 NC_001978.2 + 40630 0.67 0.280487
Target:  5'- cCUUAGcGGUGCuUGAUGCgugGCGCGUAa- -3'
miRNA:   3'- -GAGUC-CCGCG-GCUGCGa--CGCGCGUag -5'
8196 3' -61.4 NC_001978.2 + 36962 0.68 0.247209
Target:  5'- -gCAGGGUGCCGACcgGCaGCG-GCAg- -3'
miRNA:   3'- gaGUCCCGCGGCUG--CGaCGCgCGUag -5'
8196 3' -61.4 NC_001978.2 + 10286 0.68 0.240959
Target:  5'- uUCAGGGCGcCCGAaugGCgGCG-GCGUg -3'
miRNA:   3'- gAGUCCCGC-GGCUg--CGaCGCgCGUAg -5'
8196 3' -61.4 NC_001978.2 + 33863 0.68 0.228855
Target:  5'- ---cGGGUGCCGACcgUGCGCGUGUa -3'
miRNA:   3'- gaguCCCGCGGCUGcgACGCGCGUAg -5'
8196 3' -61.4 NC_001978.2 + 11997 0.68 0.222997
Target:  5'- uUCAGGacgGCGUCGGCuaUG-GCGCGUCu -3'
miRNA:   3'- gAGUCC---CGCGGCUGcgACgCGCGUAG- -5'
8196 3' -61.4 NC_001978.2 + 11522 0.69 0.211665
Target:  5'- gUCgAGcGGCGCCGAcCGCuUGCGUGCc-- -3'
miRNA:   3'- gAG-UC-CCGCGGCU-GCG-ACGCGCGuag -5'
8196 3' -61.4 NC_001978.2 + 20490 0.69 0.206187
Target:  5'- uCUCAGGGCGUCGACcugggGCUGaagcucaccaaCGCGgGUg -3'
miRNA:   3'- -GAGUCCCGCGGCUG-----CGAC-----------GCGCgUAg -5'
8196 3' -61.4 NC_001978.2 + 32267 0.69 0.200832
Target:  5'- cCUCAGccguGCGCCaucccucaGCGgUGCGCGCGUCc -3'
miRNA:   3'- -GAGUCc---CGCGGc-------UGCgACGCGCGUAG- -5'
8196 3' -61.4 NC_001978.2 + 17448 0.7 0.177734
Target:  5'- gCUgAGGGCGaCGGCGUguaucugcgcaagcGUGCGCGUCg -3'
miRNA:   3'- -GAgUCCCGCgGCUGCGa-------------CGCGCGUAG- -5'
8196 3' -61.4 NC_001978.2 + 24379 0.7 0.175841
Target:  5'- uUCAucGGGC-CCGACGCUGCGCcuGCc-- -3'
miRNA:   3'- gAGU--CCCGcGGCUGCGACGCG--CGuag -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.