miRNA display CGI


Results 1 - 20 of 26 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
19768 5' -58.9 NC_004687.1 + 123251 0.66 0.816608
Target:  5'- aCCUCCAGGuGgUCGgcagAGACCGGagcGGGc-- -3'
miRNA:   3'- -GGAGGUCC-CgAGC----UCUGGCC---CCUauu -5'
19768 5' -58.9 NC_004687.1 + 30910 0.66 0.816608
Target:  5'- gCgUCgAGGGUggUC-AGGCCGGGGAg-- -3'
miRNA:   3'- -GgAGgUCCCG--AGcUCUGGCCCCUauu -5'
19768 5' -58.9 NC_004687.1 + 91861 0.66 0.80805
Target:  5'- aUCUCCAGGGCcuuguugaugaUCGAGGgcCCGGcguagucguGGGUGu -3'
miRNA:   3'- -GGAGGUCCCG-----------AGCUCU--GGCC---------CCUAUu -5'
19768 5' -58.9 NC_004687.1 + 4058 0.66 0.79934
Target:  5'- --aCCAGGGCgugUGGGGCCaGGuGGAUu- -3'
miRNA:   3'- ggaGGUCCCGa--GCUCUGG-CC-CCUAuu -5'
19768 5' -58.9 NC_004687.1 + 84107 0.66 0.79934
Target:  5'- aCCUCUcgguGGaGUUCGA--CCGGGGAUAc -3'
miRNA:   3'- -GGAGGu---CC-CGAGCUcuGGCCCCUAUu -5'
19768 5' -58.9 NC_004687.1 + 139158 0.66 0.79758
Target:  5'- gCC-CCGGGGCgcugugacgaugCGAGGCCGGaaGAUGu -3'
miRNA:   3'- -GGaGGUCCCGa-----------GCUCUGGCCc-CUAUu -5'
19768 5' -58.9 NC_004687.1 + 26294 0.66 0.788695
Target:  5'- cCCUUCAGGGCaguagagggacguUacucgccCGGGGCCGGGGu--- -3'
miRNA:   3'- -GGAGGUCCCG-------------A-------GCUCUGGCCCCuauu -5'
19768 5' -58.9 NC_004687.1 + 48779 0.66 0.78149
Target:  5'- aCCUcCCGGGGCUCGAcgagGACgucggcgccggaCGGGGc--- -3'
miRNA:   3'- -GGA-GGUCCCGAGCU----CUG------------GCCCCuauu -5'
19768 5' -58.9 NC_004687.1 + 36695 0.66 0.78149
Target:  5'- -gUCCAGGGCcaaggugccCGAGcgcACCGGcGGGUAGg -3'
miRNA:   3'- ggAGGUCCCGa--------GCUC---UGGCC-CCUAUU- -5'
19768 5' -58.9 NC_004687.1 + 78251 0.66 0.78149
Target:  5'- cUCUCCAGGGCgUUGAGuCCGGccuGGUc- -3'
miRNA:   3'- -GGAGGUCCCG-AGCUCuGGCCc--CUAuu -5'
19768 5' -58.9 NC_004687.1 + 10285 0.66 0.772369
Target:  5'- gCUCCAGGGCgucacugaugCGcuGCUGGGcGAUGu -3'
miRNA:   3'- gGAGGUCCCGa---------GCucUGGCCC-CUAUu -5'
19768 5' -58.9 NC_004687.1 + 86705 0.66 0.772369
Target:  5'- uCCUcgucCCAGGGCgcaccggucUGGGuggccugcccGCCGGGGAUGAc -3'
miRNA:   3'- -GGA----GGUCCCGa--------GCUC----------UGGCCCCUAUU- -5'
19768 5' -58.9 NC_004687.1 + 132462 0.67 0.734767
Target:  5'- cCCUgCGGGG-UCGAGAcuuCCGGGGc--- -3'
miRNA:   3'- -GGAgGUCCCgAGCUCU---GGCCCCuauu -5'
19768 5' -58.9 NC_004687.1 + 13655 0.67 0.734767
Target:  5'- --gCCAGGGCccacaggCGAGGCCgguaGGGGAa-- -3'
miRNA:   3'- ggaGGUCCCGa------GCUCUGG----CCCCUauu -5'
19768 5' -58.9 NC_004687.1 + 61206 0.67 0.715418
Target:  5'- gCUCUGGGccaGCUgGAGACCGGGcGGg-- -3'
miRNA:   3'- gGAGGUCC---CGAgCUCUGGCCC-CUauu -5'
19768 5' -58.9 NC_004687.1 + 60816 0.68 0.705636
Target:  5'- aCUCCGGGGCcUGGuGCCGGaGGGa-- -3'
miRNA:   3'- gGAGGUCCCGaGCUcUGGCC-CCUauu -5'
19768 5' -58.9 NC_004687.1 + 147077 0.68 0.695795
Target:  5'- gCCagCCGGGGCUCGc-GCUGGcGGGUGc -3'
miRNA:   3'- -GGa-GGUCCCGAGCucUGGCC-CCUAUu -5'
19768 5' -58.9 NC_004687.1 + 120002 0.68 0.685903
Target:  5'- aUCUCCGGcGuCUCGccguGGCCGGGGAa-- -3'
miRNA:   3'- -GGAGGUCcC-GAGCu---CUGGCCCCUauu -5'
19768 5' -58.9 NC_004687.1 + 111786 0.68 0.675969
Target:  5'- gCUCCAGgaaGGCcaccaGGGuCCGGGGGUAAg -3'
miRNA:   3'- gGAGGUC---CCGag---CUCuGGCCCCUAUU- -5'
19768 5' -58.9 NC_004687.1 + 68091 0.68 0.656004
Target:  5'- gCCUCCGGGGUccauggccUCGAacagGACCGGGu---- -3'
miRNA:   3'- -GGAGGUCCCG--------AGCU----CUGGCCCcuauu -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.