miRNA display CGI


Results 1 - 18 of 18 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
3800 3' -54.5 NC_001650.1 + 109463 0.66 0.95709
Target:  5'- --aUGcCGcCCGGGUUGGCCUGGUcuauguGCAg -3'
miRNA:   3'- gaaACaGU-GGUCCGACCGGGUCA------UGU- -5'
3800 3' -54.5 NC_001650.1 + 88098 0.66 0.953179
Target:  5'- ---aGagGCCAGGCUGGUCauauGGUAUg -3'
miRNA:   3'- gaaaCagUGGUCCGACCGGg---UCAUGu -5'
3800 3' -54.5 NC_001650.1 + 55623 0.66 0.948607
Target:  5'- cCUggGUCA-CGGGCUcggcggggcggugGGCCCAGUccGCGu -3'
miRNA:   3'- -GAaaCAGUgGUCCGA-------------CCGGGUCA--UGU- -5'
3800 3' -54.5 NC_001650.1 + 28230 0.66 0.940032
Target:  5'- ---gGUCACgCAGGggGGCUCGGUGg- -3'
miRNA:   3'- gaaaCAGUG-GUCCgaCCGGGUCAUgu -5'
3800 3' -54.5 NC_001650.1 + 27088 0.67 0.930065
Target:  5'- -----aCACCAGcCUGGCCCAG-GCGc -3'
miRNA:   3'- gaaacaGUGGUCcGACCGGGUCaUGU- -5'
3800 3' -54.5 NC_001650.1 + 51514 0.67 0.930065
Target:  5'- ----aUCGCCGaGCUGGCCCAGccACu -3'
miRNA:   3'- gaaacAGUGGUcCGACCGGGUCa-UGu -5'
3800 3' -54.5 NC_001650.1 + 83555 0.67 0.913287
Target:  5'- ---cGUU-UCAGGCUGGCCCugggcaagggggAGUACGg -3'
miRNA:   3'- gaaaCAGuGGUCCGACCGGG------------UCAUGU- -5'
3800 3' -54.5 NC_001650.1 + 117491 0.68 0.900892
Target:  5'- ---cGUCACCAGcugguuaCUGGCCCugaccgccugguAGUACAu -3'
miRNA:   3'- gaaaCAGUGGUCc------GACCGGG------------UCAUGU- -5'
3800 3' -54.5 NC_001650.1 + 123588 0.68 0.892325
Target:  5'- aCUUUGUgcugCGCCAGGggGGCuccauagcgcccgaCCAGUACGu -3'
miRNA:   3'- -GAAACA----GUGGUCCgaCCG--------------GGUCAUGU- -5'
3800 3' -54.5 NC_001650.1 + 181946 0.68 0.887548
Target:  5'- --cUGUUGCCGGGCagGGUUCAGUGu- -3'
miRNA:   3'- gaaACAGUGGUCCGa-CCGGGUCAUgu -5'
3800 3' -54.5 NC_001650.1 + 15239 0.68 0.887548
Target:  5'- --cUGUUGCCGGGCagGGUUCAGUGu- -3'
miRNA:   3'- gaaACAGUGGUCCGa-CCGGGUCAUgu -5'
3800 3' -54.5 NC_001650.1 + 47632 0.68 0.887548
Target:  5'- gUUUGUCuucggGCCugGGGCUGGugcggcgauggaCCCGGUGCGc -3'
miRNA:   3'- gAAACAG-----UGG--UCCGACC------------GGGUCAUGU- -5'
3800 3' -54.5 NC_001650.1 + 43973 0.69 0.842169
Target:  5'- ------gGCCGGGCUGaGCCCAGgguUACAu -3'
miRNA:   3'- gaaacagUGGUCCGAC-CGGGUC---AUGU- -5'
3800 3' -54.5 NC_001650.1 + 157313 0.7 0.789825
Target:  5'- -----cCACCA-GCUGGCCgCGGUACAg -3'
miRNA:   3'- gaaacaGUGGUcCGACCGG-GUCAUGU- -5'
3800 3' -54.5 NC_001650.1 + 14889 0.71 0.780543
Target:  5'- uCUUUGUCuucucACCAGGCcacGGCCCaacgggGGUGCu -3'
miRNA:   3'- -GAAACAG-----UGGUCCGa--CCGGG------UCAUGu -5'
3800 3' -54.5 NC_001650.1 + 181596 0.71 0.780543
Target:  5'- uCUUUGUCuucucACCAGGCcacGGCCCaacgggGGUGCu -3'
miRNA:   3'- -GAAACAG-----UGGUCCGa--CCGGG------UCAUGu -5'
3800 3' -54.5 NC_001650.1 + 130310 0.74 0.609632
Target:  5'- -----aCGCCAGGCUGGCCgCGGU-CAu -3'
miRNA:   3'- gaaacaGUGGUCCGACCGG-GUCAuGU- -5'
3800 3' -54.5 NC_001650.1 + 25730 1.09 0.004145
Target:  5'- aCUUUGUCACCAGGCUGGCCCAGUACAu -3'
miRNA:   3'- -GAAACAGUGGUCCGACCGGGUCAUGU- -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.