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
30472 5' -59.3 NC_006548.1 + 7678 0.66 0.410602
Target:  5'- cCAUGACGGCCGacCAGCgC-GCGGcaGAGc -3'
miRNA:   3'- cGUAUUGCCGGC--GUCGgGuCGCC--CUC- -5'
30472 5' -59.3 NC_006548.1 + 7423 0.66 0.409668
Target:  5'- gGCcgAuAUGGCCGCccuggauGCCCAGUucgcggacggaguGGGAGc -3'
miRNA:   3'- -CGuaU-UGCCGGCGu------CGGGUCG-------------CCCUC- -5'
30472 5' -59.3 NC_006548.1 + 36866 0.66 0.392161
Target:  5'- cGCAUAA-GGCCGC-GCCUGGCGcuGGu- -3'
miRNA:   3'- -CGUAUUgCCGGCGuCGGGUCGC--CCuc -5'
30472 5' -59.3 NC_006548.1 + 27785 0.66 0.383145
Target:  5'- ----cGCGGCCGCca-CCAgGCGGGAa -3'
miRNA:   3'- cguauUGCCGGCGucgGGU-CGCCCUc -5'
30472 5' -59.3 NC_006548.1 + 12642 0.66 0.380467
Target:  5'- cGCGgaaguUGGCGGCCGagcGCCCGGCGuugaagcgcucgacGGAa -3'
miRNA:   3'- -CGU-----AUUGCCGGCgu-CGGGUCGC--------------CCUc -5'
30472 5' -59.3 NC_006548.1 + 30832 0.66 0.36553
Target:  5'- -aGUGAaacCGaGCCaGC-GCCCGGCGGGAu -3'
miRNA:   3'- cgUAUU---GC-CGG-CGuCGGGUCGCCCUc -5'
30472 5' -59.3 NC_006548.1 + 27104 0.67 0.356934
Target:  5'- uGCAgcgaGGCCGCcaccauGGCCCugauGCGGGc- -3'
miRNA:   3'- -CGUauugCCGGCG------UCGGGu---CGCCCuc -5'
30472 5' -59.3 NC_006548.1 + 5536 0.67 0.32399
Target:  5'- gGCucgAGCGGUCGaccugAGCCCGGCGGc-- -3'
miRNA:   3'- -CGua-UUGCCGGCg----UCGGGUCGCCcuc -5'
30472 5' -59.3 NC_006548.1 + 1963 0.67 0.323196
Target:  5'- gGCAcca-GGCCGUGGCUCGGCuuacucaGGGGGu -3'
miRNA:   3'- -CGUauugCCGGCGUCGGGUCG-------CCCUC- -5'
30472 5' -59.3 NC_006548.1 + 17950 0.68 0.300802
Target:  5'- aGCcgGAgGGUgGcCAGCCUGGCGGGc- -3'
miRNA:   3'- -CGuaUUgCCGgC-GUCGGGUCGCCCuc -5'
30472 5' -59.3 NC_006548.1 + 25933 0.69 0.265044
Target:  5'- uCGUAACGGCCcgcGCGGgCCAGCaGGcGg -3'
miRNA:   3'- cGUAUUGCCGG---CGUCgGGUCGcCCuC- -5'
30472 5' -59.3 NC_006548.1 + 3841 0.69 0.251735
Target:  5'- uGCAggAGCGGCgCGCucAGCaauCAGCaGGGAGg -3'
miRNA:   3'- -CGUa-UUGCCG-GCG--UCGg--GUCG-CCCUC- -5'
30472 5' -59.3 NC_006548.1 + 28028 0.7 0.203938
Target:  5'- cGCGguuCGG-CGCGGCCCuGCaGGAGg -3'
miRNA:   3'- -CGUauuGCCgGCGUCGGGuCGcCCUC- -5'
30472 5' -59.3 NC_006548.1 + 29822 0.73 0.13158
Target:  5'- gGCG--GCGGCCGCAaCCCAGcCGGGc- -3'
miRNA:   3'- -CGUauUGCCGGCGUcGGGUC-GCCCuc -5'
30472 5' -59.3 NC_006548.1 + 21338 0.74 0.120963
Target:  5'- uGCGcUGACGGCCGaC-GCCCAGgGGcGAGc -3'
miRNA:   3'- -CGU-AUUGCCGGC-GuCGGGUCgCC-CUC- -5'
30472 5' -59.3 NC_006548.1 + 18790 0.74 0.108044
Target:  5'- aGCAgcACGGCCuGCGGCUgGGCGaGGAu -3'
miRNA:   3'- -CGUauUGCCGG-CGUCGGgUCGC-CCUc -5'
30472 5' -59.3 NC_006548.1 + 36409 0.82 0.026697
Target:  5'- gGCcgGACGGCCGCAuGCCCAGCGcagcGAGg -3'
miRNA:   3'- -CGuaUUGCCGGCGU-CGGGUCGCc---CUC- -5'
30472 5' -59.3 NC_006548.1 + 30907 1.11 0.000164
Target:  5'- cGCAUAACGGCCGCAGCCCAGCGGGAGg -3'
miRNA:   3'- -CGUAUUGCCGGCGUCGGGUCGCCCUC- -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.