miRNA display CGI


Results 1 - 18 of 18 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
19555 5' -53.9 NC_004686.1 + 42779 0.66 0.833302
Target:  5'- gCGGCgCgGGCUCAGGagUUGGaaGCCa -3'
miRNA:   3'- gGCUGaGgCUGAGUCCa-AACUcgCGG- -5'
19555 5' -53.9 NC_004686.1 + 10289 0.66 0.824319
Target:  5'- aCGGCUCUcgguaaGGCUguGGUgUGGGcCGCUc -3'
miRNA:   3'- gGCUGAGG------CUGAguCCAaACUC-GCGG- -5'
19555 5' -53.9 NC_004686.1 + 48395 0.66 0.805764
Target:  5'- cUCGACUCCGACUacaccgAGGUc----CGCCg -3'
miRNA:   3'- -GGCUGAGGCUGAg-----UCCAaacucGCGG- -5'
19555 5' -53.9 NC_004686.1 + 38331 0.66 0.805764
Target:  5'- uCgGugUCCGcucguugaggcGCUUAGGUgggggUGAGUGaCCa -3'
miRNA:   3'- -GgCugAGGC-----------UGAGUCCAa----ACUCGC-GG- -5'
19555 5' -53.9 NC_004686.1 + 44985 0.66 0.796211
Target:  5'- aUCGGCg--GACUCgaacuGGGUUUGGaacGCGCCg -3'
miRNA:   3'- -GGCUGaggCUGAG-----UCCAAACU---CGCGG- -5'
19555 5' -53.9 NC_004686.1 + 14576 0.67 0.78649
Target:  5'- aCGGCUCCGGaucgccuggCAGGUagcGGGUGCa -3'
miRNA:   3'- gGCUGAGGCUga-------GUCCAaa-CUCGCGg -5'
19555 5' -53.9 NC_004686.1 + 1415 0.67 0.77661
Target:  5'- uCCGGaguCUCCugaGACUguGGUggcggauaUUGAuGCGCCg -3'
miRNA:   3'- -GGCU---GAGG---CUGAguCCA--------AACU-CGCGG- -5'
19555 5' -53.9 NC_004686.1 + 675 0.67 0.77661
Target:  5'- gCCGAUcgcuUCCGGaagUCGGGUUaacccuGCGCCg -3'
miRNA:   3'- -GGCUG----AGGCUg--AGUCCAAacu---CGCGG- -5'
19555 5' -53.9 NC_004686.1 + 12117 0.67 0.766582
Target:  5'- gCGGCUUCGGCUgccgcaacggCGGGcagUUUcGGCGCCg -3'
miRNA:   3'- gGCUGAGGCUGA----------GUCC---AAAcUCGCGG- -5'
19555 5' -53.9 NC_004686.1 + 11641 0.69 0.649728
Target:  5'- aCCGAUUCCGACUUcgaagcguugGGGUUcaagcgGGGCuucaaGCCc -3'
miRNA:   3'- -GGCUGAGGCUGAG----------UCCAAa-----CUCG-----CGG- -5'
19555 5' -53.9 NC_004686.1 + 56114 0.69 0.649728
Target:  5'- gCGACg-CGGC-CGGGUUggcGGGUGCCg -3'
miRNA:   3'- gGCUGagGCUGaGUCCAAa--CUCGCGG- -5'
19555 5' -53.9 NC_004686.1 + 9422 0.69 0.638796
Target:  5'- gCCGACUCCGcCUCA---UUGAaUGCCg -3'
miRNA:   3'- -GGCUGAGGCuGAGUccaAACUcGCGG- -5'
19555 5' -53.9 NC_004686.1 + 34993 0.7 0.606002
Target:  5'- cUCGACUCUGACgaaaGGGUgucGGuCGCCg -3'
miRNA:   3'- -GGCUGAGGCUGag--UCCAaacUC-GCGG- -5'
19555 5' -53.9 NC_004686.1 + 12033 0.71 0.5519
Target:  5'- aCCaGCUuuGugUcCGGGUUguacaacaUGGGCGCCg -3'
miRNA:   3'- -GGcUGAggCugA-GUCCAA--------ACUCGCGG- -5'
19555 5' -53.9 NC_004686.1 + 18579 0.71 0.520127
Target:  5'- aUCGGCUCCGACUUggcggcacgauAGGUgaugGccAGCGUCg -3'
miRNA:   3'- -GGCUGAGGCUGAG-----------UCCAaa--C--UCGCGG- -5'
19555 5' -53.9 NC_004686.1 + 55081 0.73 0.411044
Target:  5'- gCUGugUCCGcCcCGGGUUUGguGGUGCCg -3'
miRNA:   3'- -GGCugAGGCuGaGUCCAAAC--UCGCGG- -5'
19555 5' -53.9 NC_004686.1 + 17228 0.74 0.375022
Target:  5'- uCCcACUCCGACUgAGGgc-GGGCaGCCa -3'
miRNA:   3'- -GGcUGAGGCUGAgUCCaaaCUCG-CGG- -5'
19555 5' -53.9 NC_004686.1 + 695 1.14 0.00081
Target:  5'- gCCGACUCCGACUCAGGUUUGAGCGCCu -3'
miRNA:   3'- -GGCUGAGGCUGAGUCCAAACUCGCGG- -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.