miRNA display CGI


Results 1 - 20 of 35 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
11575 5' -59.1 NC_003085.1 + 22922 0.66 0.491758
Target:  5'- gGGGCgaAGCCCuCCGAG--GCcgCGUCGa -3'
miRNA:   3'- gCCCG--UCGGGuGGCUCguUGa-GCAGU- -5'
11575 5' -59.1 NC_003085.1 + 20928 0.66 0.481673
Target:  5'- uGGGCGGCaCCGCagcGGCgAGCUCGg-- -3'
miRNA:   3'- gCCCGUCG-GGUGgc-UCG-UUGAGCagu -5'
11575 5' -59.1 NC_003085.1 + 48771 0.66 0.470696
Target:  5'- uGGGCGaguccGCCaCGCCGcGCAACggugcgcccauguUCGUCGu -3'
miRNA:   3'- gCCCGU-----CGG-GUGGCuCGUUG-------------AGCAGU- -5'
11575 5' -59.1 NC_003085.1 + 28873 0.66 0.461811
Target:  5'- --cGCGGCgCUGCCGAGCAGCa-GUCGc -3'
miRNA:   3'- gccCGUCG-GGUGGCUCGUUGagCAGU- -5'
11575 5' -59.1 NC_003085.1 + 30011 0.66 0.452043
Target:  5'- uGGGCGGCCUu---GGCGACgUCGUCc -3'
miRNA:   3'- gCCCGUCGGGuggcUCGUUG-AGCAGu -5'
11575 5' -59.1 NC_003085.1 + 33306 0.67 0.439516
Target:  5'- cCGGGCucaacggcucauggAGCCCgGCCGAGUGcCUCGg-- -3'
miRNA:   3'- -GCCCG--------------UCGGG-UGGCUCGUuGAGCagu -5'
11575 5' -59.1 NC_003085.1 + 48349 0.67 0.432854
Target:  5'- uGGGCuGCgCCucuCCGAGUGACUCa--- -3'
miRNA:   3'- gCCCGuCG-GGu--GGCUCGUUGAGcagu -5'
11575 5' -59.1 NC_003085.1 + 34873 0.67 0.432854
Target:  5'- -aGGCucccGCCCACUGAaCcGCUCGUCGu -3'
miRNA:   3'- gcCCGu---CGGGUGGCUcGuUGAGCAGU- -5'
11575 5' -59.1 NC_003085.1 + 44126 0.67 0.432854
Target:  5'- aGGGUGGCCCuuCGAGC-GCUCu--- -3'
miRNA:   3'- gCCCGUCGGGugGCUCGuUGAGcagu -5'
11575 5' -59.1 NC_003085.1 + 43036 0.67 0.423438
Target:  5'- cCGGGCcgugucgagcGGCCCGCUGGGgAACggcugCGUgGa -3'
miRNA:   3'- -GCCCG----------UCGGGUGGCUCgUUGa----GCAgU- -5'
11575 5' -59.1 NC_003085.1 + 3875 0.67 0.423438
Target:  5'- aCGGcGC-GCCCGCCGucugucgcgguGGCAcuGCUCGUg- -3'
miRNA:   3'- -GCC-CGuCGGGUGGC-----------UCGU--UGAGCAgu -5'
11575 5' -59.1 NC_003085.1 + 39943 0.67 0.395946
Target:  5'- gCGGGUAGUCC-CgGAcGCuuCUCGUCc -3'
miRNA:   3'- -GCCCGUCGGGuGgCU-CGuuGAGCAGu -5'
11575 5' -59.1 NC_003085.1 + 25603 0.68 0.387041
Target:  5'- uGGGCAGCCU-CCGccaucugcucAGCGACUCaUCc -3'
miRNA:   3'- gCCCGUCGGGuGGC----------UCGUUGAGcAGu -5'
11575 5' -59.1 NC_003085.1 + 32035 0.68 0.386157
Target:  5'- gGGGCagucgccAGCCCGCCGAG-GACcUGUCc -3'
miRNA:   3'- gCCCG-------UCGGGUGGCUCgUUGaGCAGu -5'
11575 5' -59.1 NC_003085.1 + 9449 0.68 0.369631
Target:  5'- cCGGcGCucauggacgAGCUCgagGCCGGGCAAUUCGUCc -3'
miRNA:   3'- -GCC-CG---------UCGGG---UGGCUCGUUGAGCAGu -5'
11575 5' -59.1 NC_003085.1 + 24900 0.68 0.361129
Target:  5'- aGGGCcGCCUcaucGCCGAGUAacagcGCUCGcgCAg -3'
miRNA:   3'- gCCCGuCGGG----UGGCUCGU-----UGAGCa-GU- -5'
11575 5' -59.1 NC_003085.1 + 12124 0.68 0.361129
Target:  5'- gGGGUAGCCCGCgaAGCGGCgcacgaaGUCGc -3'
miRNA:   3'- gCCCGUCGGGUGgcUCGUUGag-----CAGU- -5'
11575 5' -59.1 NC_003085.1 + 40995 0.68 0.344538
Target:  5'- aGGGCuGGCCCAgCG-GCG--UCGUCAu -3'
miRNA:   3'- gCCCG-UCGGGUgGCuCGUugAGCAGU- -5'
11575 5' -59.1 NC_003085.1 + 43447 0.69 0.336451
Target:  5'- aGGGguGCCgCgcuGCUGAGCGAUgaCGUCAc -3'
miRNA:   3'- gCCCguCGG-G---UGGCUCGUUGa-GCAGU- -5'
11575 5' -59.1 NC_003085.1 + 25969 0.69 0.336451
Target:  5'- gGGGaauGCCCccuCCGAGCAACUCc--- -3'
miRNA:   3'- gCCCgu-CGGGu--GGCUCGUUGAGcagu -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.