miRNA display CGI


Results 1 - 20 of 60 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
9374 3' -53.9 NC_002512.2 + 103352 0.84 0.27163
Target:  5'- -gGCGGACGGCACGGUCGAggucaggcCGCCGg -3'
miRNA:   3'- ggUGCCUGUCGUGUCAGCUaa------GCGGU- -5'
9374 3' -53.9 NC_002512.2 + 178241 0.79 0.46559
Target:  5'- uCCGgGGACGGCGCGGUCuccgGGUccgUCGCCAu -3'
miRNA:   3'- -GGUgCCUGUCGUGUCAG----CUA---AGCGGU- -5'
9374 3' -53.9 NC_002512.2 + 132540 0.76 0.600601
Target:  5'- uCCGCGGGCGGCGCcGUCGGccucucCGCCc -3'
miRNA:   3'- -GGUGCCUGUCGUGuCAGCUaa----GCGGu -5'
9374 3' -53.9 NC_002512.2 + 110666 0.75 0.70044
Target:  5'- aCCGCGGGCAGC-CGGUCcuGGUgcUCGCgCAg -3'
miRNA:   3'- -GGUGCCUGUCGuGUCAG--CUA--AGCG-GU- -5'
9374 3' -53.9 NC_002512.2 + 189205 0.74 0.75914
Target:  5'- gCCGCGGGCGGCAUgcUCGAcgucggauccguccgUCGCCGu -3'
miRNA:   3'- -GGUGCCUGUCGUGucAGCUa--------------AGCGGU- -5'
9374 3' -53.9 NC_002512.2 + 106774 0.73 0.767508
Target:  5'- gCCGCcGACGGCGCGGgaCGGUUcCGCCGg -3'
miRNA:   3'- -GGUGcCUGUCGUGUCa-GCUAA-GCGGU- -5'
9374 3' -53.9 NC_002512.2 + 104559 0.72 0.819764
Target:  5'- aCCAcCGGACggcgaagAGCACGG-CGcuGUUCGCCAg -3'
miRNA:   3'- -GGU-GCCUG-------UCGUGUCaGC--UAAGCGGU- -5'
9374 3' -53.9 NC_002512.2 + 150956 0.72 0.820605
Target:  5'- gCCGCGGACucggaGGCGgGcUCGcgUCGCCAu -3'
miRNA:   3'- -GGUGCCUG-----UCGUgUcAGCuaAGCGGU- -5'
9374 3' -53.9 NC_002512.2 + 96473 0.72 0.828925
Target:  5'- gCGCGGACcGCGCGGcCGucUCGCCc -3'
miRNA:   3'- gGUGCCUGuCGUGUCaGCuaAGCGGu -5'
9374 3' -53.9 NC_002512.2 + 165976 0.71 0.860416
Target:  5'- gCUGCGG-CGGgGCGGUCGGUucuUCGUCAa -3'
miRNA:   3'- -GGUGCCuGUCgUGUCAGCUA---AGCGGU- -5'
9374 3' -53.9 NC_002512.2 + 122263 0.71 0.867809
Target:  5'- aCCACGGGCAGC-CGccCGAcUCGCUg -3'
miRNA:   3'- -GGUGCCUGUCGuGUcaGCUaAGCGGu -5'
9374 3' -53.9 NC_002512.2 + 76161 0.71 0.888749
Target:  5'- cCCACGGACAGCGCcGUgaGAccCGaCCAg -3'
miRNA:   3'- -GGUGCCUGUCGUGuCAg-CUaaGC-GGU- -5'
9374 3' -53.9 NC_002512.2 + 174978 0.7 0.907738
Target:  5'- cCCACaGGCAGCGCAGcaccuccuUCGGcaggaucuucgUCGCCAg -3'
miRNA:   3'- -GGUGcCUGUCGUGUC--------AGCUa----------AGCGGU- -5'
9374 3' -53.9 NC_002512.2 + 184466 0.7 0.907738
Target:  5'- gCCGCGGcCGGCGCcgccGUCGAg-CGCCc -3'
miRNA:   3'- -GGUGCCuGUCGUGu---CAGCUaaGCGGu -5'
9374 3' -53.9 NC_002512.2 + 109955 0.7 0.9176
Target:  5'- aUCGCGGACuGCGCGucgcacaugcuccuGUCGAUccugUCGCUg -3'
miRNA:   3'- -GGUGCCUGuCGUGU--------------CAGCUA----AGCGGu -5'
9374 3' -53.9 NC_002512.2 + 110618 0.69 0.924696
Target:  5'- uCCugGG-CGGCGCAGaccaUgGggUCGCCGg -3'
miRNA:   3'- -GGugCCuGUCGUGUC----AgCuaAGCGGU- -5'
9374 3' -53.9 NC_002512.2 + 179308 0.69 0.929891
Target:  5'- uCCGCGGGCGGCgagGCGGgcaGAUccugcagCGCCGc -3'
miRNA:   3'- -GGUGCCUGUCG---UGUCag-CUAa------GCGGU- -5'
9374 3' -53.9 NC_002512.2 + 127656 0.69 0.929891
Target:  5'- gCuCGGACGGC-CGGUCGAgg-GCCGc -3'
miRNA:   3'- gGuGCCUGUCGuGUCAGCUaagCGGU- -5'
9374 3' -53.9 NC_002512.2 + 217788 0.69 0.934856
Target:  5'- gUCGCGGcCGGCugGCGGaUCGGcgUCGCCGu -3'
miRNA:   3'- -GGUGCCuGUCG--UGUC-AGCUa-AGCGGU- -5'
9374 3' -53.9 NC_002512.2 + 201791 0.69 0.934856
Target:  5'- gCGCGGACGGgGCGG-CGAccucucCGCCGu -3'
miRNA:   3'- gGUGCCUGUCgUGUCaGCUaa----GCGGU- -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.