miRNA display CGI


Results 1 - 20 of 22 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
19289 3' -58.3 NC_004685.1 + 26306 0.66 0.626293
Target:  5'- cAUCaugguGCCCCcgCACCC-CGAcCUCGGg -3'
miRNA:   3'- -UAGgu---CGGGGa-GUGGGaGCUuGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 57399 0.66 0.625225
Target:  5'- -aUCGGCCCgaUCACacgaccuCCUCGAAgUCGAg -3'
miRNA:   3'- uaGGUCGGGg-AGUG-------GGAGCUUgAGCU- -5'
19289 3' -58.3 NC_004685.1 + 45963 0.66 0.616682
Target:  5'- uUCCAGCCCCaguggcgcucgccgUCcaggccaauccaguuGCCCUUGcuCUCGGg -3'
miRNA:   3'- uAGGUCGGGG--------------AG---------------UGGGAGCuuGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 37333 0.66 0.594305
Target:  5'- -gCCGGCCaCCUCugCgC-CGuACUCGAu -3'
miRNA:   3'- uaGGUCGG-GGAGugG-GaGCuUGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 16472 0.66 0.594305
Target:  5'- -aCCGGCUCgCUgACCuaCUCGAACaUCGAg -3'
miRNA:   3'- uaGGUCGGG-GAgUGG--GAGCUUG-AGCU- -5'
19289 3' -58.3 NC_004685.1 + 65631 0.66 0.583691
Target:  5'- --gCAGCagaaaaaCUCGCCCUCGAugUUGGc -3'
miRNA:   3'- uagGUCGgg-----GAGUGGGAGCUugAGCU- -5'
19289 3' -58.3 NC_004685.1 + 32080 0.66 0.573116
Target:  5'- -aCCGGCgggcagguuccCCCgggCACCC-CGAACUCGc -3'
miRNA:   3'- uaGGUCG-----------GGGa--GUGGGaGCUUGAGCu -5'
19289 3' -58.3 NC_004685.1 + 51137 0.67 0.562586
Target:  5'- ---uGGCCgaCagACCCUCGGGCUCGAc -3'
miRNA:   3'- uaggUCGGg-GagUGGGAGCUUGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 46338 0.67 0.552109
Target:  5'- cUCgGGCUCCUCGgCCUCaGACUCc- -3'
miRNA:   3'- uAGgUCGGGGAGUgGGAGcUUGAGcu -5'
19289 3' -58.3 NC_004685.1 + 67572 0.67 0.541692
Target:  5'- --gCAGCgCCUCACgCUCGGcUUCGAg -3'
miRNA:   3'- uagGUCGgGGAGUGgGAGCUuGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 57460 0.67 0.521062
Target:  5'- cUCgGGCUCUUCGCUcggCUCGAAgUCGAu -3'
miRNA:   3'- uAGgUCGGGGAGUGG---GAGCUUgAGCU- -5'
19289 3' -58.3 NC_004685.1 + 40366 0.67 0.514932
Target:  5'- cAUCCGGCagaUCAUCCUCGAggacgccugcgcaacGCUCGGc -3'
miRNA:   3'- -UAGGUCGgggAGUGGGAGCU---------------UGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 49586 0.68 0.490719
Target:  5'- -gCCAGCaCCCgcgCGCCCUCGuaggCGGg -3'
miRNA:   3'- uaGGUCG-GGGa--GUGGGAGCuugaGCU- -5'
19289 3' -58.3 NC_004685.1 + 45822 0.68 0.470952
Target:  5'- -gCCGGCCCCUCGuucagaaUCUCcGGCUCGGg -3'
miRNA:   3'- uaGGUCGGGGAGUg------GGAGcUUGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 57791 0.69 0.432688
Target:  5'- gAUCUGG-CUgUCACCCUCGGuCUCGAu -3'
miRNA:   3'- -UAGGUCgGGgAGUGGGAGCUuGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 58335 0.69 0.423408
Target:  5'- -aCCAGCCCUgCGCCCacgCGAugaUCGAg -3'
miRNA:   3'- uaGGUCGGGGaGUGGGa--GCUug-AGCU- -5'
19289 3' -58.3 NC_004685.1 + 47806 0.7 0.361939
Target:  5'- -cUCAGCCUcgggCUCAgCCUCGGGCUUGGg -3'
miRNA:   3'- uaGGUCGGG----GAGUgGGAGCUUGAGCU- -5'
19289 3' -58.3 NC_004685.1 + 66862 0.73 0.252216
Target:  5'- -cCCaAGCCCC-CACCCUCGAcgccacGCUCa- -3'
miRNA:   3'- uaGG-UCGGGGaGUGGGAGCU------UGAGcu -5'
19289 3' -58.3 NC_004685.1 + 37545 0.73 0.233859
Target:  5'- cAUCCAGCCCCUgaACCUUcugcuugggcCGAACUCGc -3'
miRNA:   3'- -UAGGUCGGGGAg-UGGGA----------GCUUGAGCu -5'
19289 3' -58.3 NC_004685.1 + 55530 0.73 0.227994
Target:  5'- cAUCUgaauGCCCUUCACCCggUCGGGCUCGc -3'
miRNA:   3'- -UAGGu---CGGGGAGUGGG--AGCUUGAGCu -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.