miRNA display CGI


Results 1 - 15 of 15 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
24869 3' -55.5 NC_005284.1 + 33230 0.66 0.727045
Target:  5'- ---gCCCGCgcggCCUGCUc-GUCGGCa -3'
miRNA:   3'- gauaGGGCGaag-GGGCGAuaCAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 12873 0.66 0.716435
Target:  5'- ---cCCUGCaUCUuuG-UAUGUCGGCg -3'
miRNA:   3'- gauaGGGCGaAGGggCgAUACAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 13721 0.66 0.684155
Target:  5'- -aGUCCuggggaggcaCGCggcgCCCCGCgagaaacGUCGGCg -3'
miRNA:   3'- gaUAGG----------GCGaa--GGGGCGaua----CAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 42916 0.67 0.673281
Target:  5'- aUcgCCCGCUUCacgccgaCGCgccaGUCGGCc -3'
miRNA:   3'- gAuaGGGCGAAGgg-----GCGaua-CAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 10185 0.67 0.673281
Target:  5'- --uUCCgGCUUgCUgGCggcgGUCGGCg -3'
miRNA:   3'- gauAGGgCGAAgGGgCGaua-CAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 54694 0.67 0.662369
Target:  5'- --uUCCCGCagcgaUUUUCCGUgccGUCGGCu -3'
miRNA:   3'- gauAGGGCG-----AAGGGGCGauaCAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 35260 0.67 0.629506
Target:  5'- ---cCCUGCcgCCCCGCgauguaguUGUCGGa -3'
miRNA:   3'- gauaGGGCGaaGGGGCGau------ACAGCCg -5'
24869 3' -55.5 NC_005284.1 + 15924 0.68 0.585762
Target:  5'- --uUCCCgGCUUUCCgGCguuccugacGUCGGCg -3'
miRNA:   3'- gauAGGG-CGAAGGGgCGaua------CAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 8022 0.69 0.553325
Target:  5'- -cAUCCCGUgaccgUUCCCGUgac-UCGGCg -3'
miRNA:   3'- gaUAGGGCGa----AGGGGCGauacAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 43775 0.7 0.494407
Target:  5'- --uUCuuGC--CCCCGCUGcggcuuucgcauccuUGUCGGCa -3'
miRNA:   3'- gauAGggCGaaGGGGCGAU---------------ACAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 8555 0.7 0.490303
Target:  5'- -cAUUCCGCaUCccaCCCGCg--GUCGGCc -3'
miRNA:   3'- gaUAGGGCGaAG---GGGCGauaCAGCCG- -5'
24869 3' -55.5 NC_005284.1 + 25039 0.7 0.450193
Target:  5'- gUAUCCCGCUcgCgCCGgUGcUGuUCGGCg -3'
miRNA:   3'- gAUAGGGCGAa-GgGGCgAU-AC-AGCCG- -5'
24869 3' -55.5 NC_005284.1 + 25337 0.74 0.266905
Target:  5'- -aGUCCUGCUUCCCCGCcuagcAUGggUGGUu -3'
miRNA:   3'- gaUAGGGCGAAGGGGCGa----UACa-GCCG- -5'
24869 3' -55.5 NC_005284.1 + 29094 0.76 0.222761
Target:  5'- gUAUCCCGCUUCCCCu---UGUCGacGCa -3'
miRNA:   3'- gAUAGGGCGAAGGGGcgauACAGC--CG- -5'
24869 3' -55.5 NC_005284.1 + 21289 1.13 0.000527
Target:  5'- aCUAUCCCGCUUCCCCGCUAUGUCGGCa -3'
miRNA:   3'- -GAUAGGGCGAAGGGGCGAUACAGCCG- -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.