miRNA display CGI


Results 1 - 17 of 17 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
32070 3' -51.5 NC_007016.1 + 118846 0.66 0.982636
Target:  5'- gGGAAUGGGGUaucgcggcGGGCGcGGgg-GGCgCg -3'
miRNA:   3'- -UUUUACUCCA--------CCCGCaCCaaaUCGgG- -5'
32070 3' -51.5 NC_007016.1 + 18685 0.66 0.978125
Target:  5'- ----cGucGUGGGCGUGGUU--GCUa -3'
miRNA:   3'- uuuuaCucCACCCGCACCAAauCGGg -5'
32070 3' -51.5 NC_007016.1 + 12978 0.66 0.978125
Target:  5'- -uAAUGGGGgccUGGGCGaUGGcgUUGGUgCg -3'
miRNA:   3'- uuUUACUCC---ACCCGC-ACCa-AAUCGgG- -5'
32070 3' -51.5 NC_007016.1 + 107745 0.67 0.966604
Target:  5'- ---cUGAGGUGuaucugcaccGGCGUGGgcUAuGCCg -3'
miRNA:   3'- uuuuACUCCAC----------CCGCACCaaAU-CGGg -5'
32070 3' -51.5 NC_007016.1 + 10884 0.67 0.966604
Target:  5'- ----gGAGGUguGGGCGUcGacgGGCCCg -3'
miRNA:   3'- uuuuaCUCCA--CCCGCAcCaaaUCGGG- -5'
32070 3' -51.5 NC_007016.1 + 90677 0.67 0.963156
Target:  5'- aGAAAgcugGAcGUGGGUGUGGUUucUAGCgaCCu -3'
miRNA:   3'- -UUUUa---CUcCACCCGCACCAA--AUCG--GG- -5'
32070 3' -51.5 NC_007016.1 + 20774 0.67 0.959468
Target:  5'- aGGGAUGAcaGGacGGGCGUGGgaaccaGGUCCg -3'
miRNA:   3'- -UUUUACU--CCa-CCCGCACCaaa---UCGGG- -5'
32070 3' -51.5 NC_007016.1 + 105194 0.67 0.959468
Target:  5'- --uGUGAauGGUGGGcCGUGGUUUccGCUa -3'
miRNA:   3'- uuuUACU--CCACCC-GCACCAAAu-CGGg -5'
32070 3' -51.5 NC_007016.1 + 11987 0.67 0.955533
Target:  5'- ----gGGGGUGccGGCGUGGUgucauuuaAGCCg -3'
miRNA:   3'- uuuuaCUCCAC--CCGCACCAaa------UCGGg -5'
32070 3' -51.5 NC_007016.1 + 17266 0.68 0.946905
Target:  5'- -cGGUGuGGGUGGGCaGgacgGGUccggacUGGCCCa -3'
miRNA:   3'- uuUUAC-UCCACCCG-Ca---CCAa-----AUCGGG- -5'
32070 3' -51.5 NC_007016.1 + 121137 0.68 0.932012
Target:  5'- ----cGuGGUGGGUGUGGUggcAGCg- -3'
miRNA:   3'- uuuuaCuCCACCCGCACCAaa-UCGgg -5'
32070 3' -51.5 NC_007016.1 + 11586 0.69 0.920759
Target:  5'- ----gGuGGUGGGCGUGcGggUAGCg- -3'
miRNA:   3'- uuuuaCuCCACCCGCAC-CaaAUCGgg -5'
32070 3' -51.5 NC_007016.1 + 78995 0.7 0.880709
Target:  5'- --uAUGAGGUGGGCaccaGGU--AGCCa -3'
miRNA:   3'- uuuUACUCCACCCGca--CCAaaUCGGg -5'
32070 3' -51.5 NC_007016.1 + 13389 0.74 0.661444
Target:  5'- --uGUGAGGggGGGCGUGGUccucgaGGaCCCa -3'
miRNA:   3'- uuuUACUCCa-CCCGCACCAaa----UC-GGG- -5'
32070 3' -51.5 NC_007016.1 + 821 0.75 0.607549
Target:  5'- ----cGGGGgacgGGGCGUGGUUUgAGaCCCc -3'
miRNA:   3'- uuuuaCUCCa---CCCGCACCAAA-UC-GGG- -5'
32070 3' -51.5 NC_007016.1 + 60867 0.85 0.204574
Target:  5'- -cGGUGAGGUGGGUGaGGUUgacGGCCCg -3'
miRNA:   3'- uuUUACUCCACCCGCaCCAAa--UCGGG- -5'
32070 3' -51.5 NC_007016.1 + 1024 1.11 0.004231
Target:  5'- aAAAAUGAGGUGGGCGUGGUUUAGCCCa -3'
miRNA:   3'- -UUUUACUCCACCCGCACCAAAUCGGG- -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.