miRNA display CGI


Results 1 - 20 of 101 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
17008 3' -52.3 NC_004333.2 + 20571 0.81 0.151451
Target:  5'- uCGGCGCGUCGg---GUCGCGCcguGGUGUu -3'
miRNA:   3'- -GCCGCGUAGCauuuUAGCGCG---CCACG- -5'
17008 3' -52.3 NC_004333.2 + 3532 0.69 0.654754
Target:  5'- uCGGCGUAaaGcGGGAUCaaCGCGGUGCc -3'
miRNA:   3'- -GCCGCGUagCaUUUUAGc-GCGCCACG- -5'
17008 3' -52.3 NC_004333.2 + 20897 0.69 0.665986
Target:  5'- cCGGCGCAgcgCGUGcuacuuggCGCGCaGGauUGCa -3'
miRNA:   3'- -GCCGCGUa--GCAUuuua----GCGCG-CC--ACG- -5'
17008 3' -52.3 NC_004333.2 + 6918 0.66 0.859445
Target:  5'- -uGCGCA-CGUuuGAggcgUGCGCGG-GCg -3'
miRNA:   3'- gcCGCGUaGCAuuUUa---GCGCGCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 11974 0.75 0.363118
Target:  5'- -cGCGCGUCGac-GAUCGCggccguaucGCGGUGCa -3'
miRNA:   3'- gcCGCGUAGCauuUUAGCG---------CGCCACG- -5'
17008 3' -52.3 NC_004333.2 + 42011 0.74 0.403247
Target:  5'- uCGGUGCG-CGUGAAG-CGCGCGGccaacgagcggggcgUGCu -3'
miRNA:   3'- -GCCGCGUaGCAUUUUaGCGCGCC---------------ACG- -5'
17008 3' -52.3 NC_004333.2 + 28229 0.73 0.447073
Target:  5'- gGGCGCGUCacgGUGAccgugacGcgCGCGCGGcGCu -3'
miRNA:   3'- gCCGCGUAG---CAUU-------UuaGCGCGCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 37302 0.72 0.510432
Target:  5'- aGGCGacgCGUuccagucGGUCGCgGCGGUGCu -3'
miRNA:   3'- gCCGCguaGCAuu-----UUAGCG-CGCCACG- -5'
17008 3' -52.3 NC_004333.2 + 37409 0.71 0.565001
Target:  5'- uCGGCGC-UCGcggu-UUGCGCGGcgUGCa -3'
miRNA:   3'- -GCCGCGuAGCauuuuAGCGCGCC--ACG- -5'
17008 3' -52.3 NC_004333.2 + 7682 0.7 0.63111
Target:  5'- cCGGCgaacccgaccacgGCGUCGUAGcgguGAUCgGCGCGGacaGCg -3'
miRNA:   3'- -GCCG-------------CGUAGCAUU----UUAG-CGCGCCa--CG- -5'
17008 3' -52.3 NC_004333.2 + 28343 0.7 0.609719
Target:  5'- -uGCGCAUCGUAccAUCGCGCcgauaGUGg -3'
miRNA:   3'- gcCGCGUAGCAUuuUAGCGCGc----CACg -5'
17008 3' -52.3 NC_004333.2 + 13626 0.71 0.553942
Target:  5'- uCGGCGagcacuUCGUGc-AUCGCGCGGUa- -3'
miRNA:   3'- -GCCGCgu----AGCAUuuUAGCGCGCCAcg -5'
17008 3' -52.3 NC_004333.2 + 39999 0.8 0.173716
Target:  5'- uGGCGCGuUCGUAGGAcugaucacggaacUCGCGCGGcGCc -3'
miRNA:   3'- gCCGCGU-AGCAUUUU-------------AGCGCGCCaCG- -5'
17008 3' -52.3 NC_004333.2 + 10573 0.7 0.620973
Target:  5'- gGGCGCAUCGca-----G-GCGGUGCu -3'
miRNA:   3'- gCCGCGUAGCauuuuagCgCGCCACG- -5'
17008 3' -52.3 NC_004333.2 + 10746 0.8 0.184123
Target:  5'- gCGGCGUAUCGUAc---CGCGCGGcccgGCg -3'
miRNA:   3'- -GCCGCGUAGCAUuuuaGCGCGCCa---CG- -5'
17008 3' -52.3 NC_004333.2 + 42108 0.71 0.542948
Target:  5'- aGGCGUGUCGcGAGGU-GCGCcaguugccGGUGCa -3'
miRNA:   3'- gCCGCGUAGCaUUUUAgCGCG--------CCACG- -5'
17008 3' -52.3 NC_004333.2 + 31494 0.7 0.620973
Target:  5'- uCGGCGUucUCGUAcuGUCGCGCGu--- -3'
miRNA:   3'- -GCCGCGu-AGCAUuuUAGCGCGCcacg -5'
17008 3' -52.3 NC_004333.2 + 8970 0.69 0.665986
Target:  5'- gGGCuGgAUCGUGGGccgUGCGCGGcgGCg -3'
miRNA:   3'- gCCG-CgUAGCAUUUua-GCGCGCCa-CG- -5'
17008 3' -52.3 NC_004333.2 + 22891 0.79 0.198852
Target:  5'- uGGCGC-UCGUGAcgagcagaaGCGCGGUGCu -3'
miRNA:   3'- gCCGCGuAGCAUUuuag-----CGCGCCACG- -5'
17008 3' -52.3 NC_004333.2 + 41722 0.74 0.408932
Target:  5'- aCGGCGCgAUCaacgagGAGAUCgGCGCGG-GCg -3'
miRNA:   3'- -GCCGCG-UAGca----UUUUAG-CGCGCCaCG- -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.