miRNA display CGI


Results 1 - 19 of 19 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
20801 3' -63.6 NC_004689.1 + 20296 0.66 0.459776
Target:  5'- aCCGGaUGCCCUACGGCcaacUGGCCc -3'
miRNA:   3'- gGGCCaGCGGGGUGCCGcccuGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 29800 0.66 0.450787
Target:  5'- aCCGGgaGUUCCACcguuGGCaccaGGACGACCa -3'
miRNA:   3'- gGGCCagCGGGGUG----CCGc---CCUGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 18595 0.66 0.450787
Target:  5'- aCgCGGUa-CCCC-CGGCccgguGGACGGCCc -3'
miRNA:   3'- -GgGCCAgcGGGGuGCCGc----CCUGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 63462 0.66 0.441896
Target:  5'- uCCCGGUCGCCagguacucaugcCCGCcuugaGGCgugccaccGGGuacagccagccaGCGACCg -3'
miRNA:   3'- -GGGCCAGCGG------------GGUG-----CCG--------CCC------------UGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 49017 0.66 0.433105
Target:  5'- aCCGG-CGCUugCCGauGCGcGGACGGCg -3'
miRNA:   3'- gGGCCaGCGG--GGUgcCGC-CCUGCUGg -5'
20801 3' -63.6 NC_004689.1 + 15971 0.66 0.433105
Target:  5'- -gCGGaaauUCGCCUgCACGcCGGGAUGAUCg -3'
miRNA:   3'- ggGCC----AGCGGG-GUGCcGCCCUGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 49742 0.66 0.424416
Target:  5'- aCCaCGGUggaaaccgucuuUGCCCUugGGCGGuGuguaguauuCGGCCc -3'
miRNA:   3'- -GG-GCCA------------GCGGGGugCCGCC-Cu--------GCUGG- -5'
20801 3' -63.6 NC_004689.1 + 58963 0.67 0.366643
Target:  5'- gUCCGGUCccuGCCCCGgcucucCGGUGgGGAUGuCUg -3'
miRNA:   3'- -GGGCCAG---CGGGGU------GCCGC-CCUGCuGG- -5'
20801 3' -63.6 NC_004689.1 + 13702 0.67 0.358843
Target:  5'- uCCCGGUCGUCaCCAgacgaauaggucUGGCGGuacuCGGCg -3'
miRNA:   3'- -GGGCCAGCGG-GGU------------GCCGCCcu--GCUGg -5'
20801 3' -63.6 NC_004689.1 + 9621 0.68 0.351161
Target:  5'- aCCGGUuggaCGCaUCCuCGGCGGcauCGACCa -3'
miRNA:   3'- gGGCCA----GCG-GGGuGCCGCCcu-GCUGG- -5'
20801 3' -63.6 NC_004689.1 + 7472 0.68 0.351161
Target:  5'- aCCGGcgaGCauggCCGCGuucGUGGGAUGACCg -3'
miRNA:   3'- gGGCCag-CGg---GGUGC---CGCCCUGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 67622 0.68 0.336148
Target:  5'- gUCCGGUgaaGCCCguUGGCGGGGgauucuucuuuCGAgCCg -3'
miRNA:   3'- -GGGCCAg--CGGGguGCCGCCCU-----------GCU-GG- -5'
20801 3' -63.6 NC_004689.1 + 45961 0.69 0.307546
Target:  5'- aCUGuGU-GCCCCACGGCGcGaACGAUCu -3'
miRNA:   3'- gGGC-CAgCGGGGUGCCGC-CcUGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 58690 0.69 0.293958
Target:  5'- gUCCaGUCGCCCuUACGagagcCGGGACGcCCg -3'
miRNA:   3'- -GGGcCAGCGGG-GUGCc----GCCCUGCuGG- -5'
20801 3' -63.6 NC_004689.1 + 11626 0.69 0.280199
Target:  5'- gCCGGUgCGCCCUgugugccgucaGCGGCGGuggucuugaaguuGACGAUUu -3'
miRNA:   3'- gGGCCA-GCGGGG-----------UGCCGCC-------------CUGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 40339 0.69 0.268196
Target:  5'- aCCCGG-CGUCUgACGGguuCGGGcuaauCGACCg -3'
miRNA:   3'- -GGGCCaGCGGGgUGCC---GCCCu----GCUGG- -5'
20801 3' -63.6 NC_004689.1 + 42170 0.69 0.268196
Target:  5'- aCCGGaUCGgCCUGCgcuGGCGGGgauGCGAUCa -3'
miRNA:   3'- gGGCC-AGCgGGGUG---CCGCCC---UGCUGG- -5'
20801 3' -63.6 NC_004689.1 + 17206 0.7 0.250093
Target:  5'- cCCCGGUaGCCCCGucuUGGUuacgaGGGAaccgUGACCa -3'
miRNA:   3'- -GGGCCAgCGGGGU---GCCG-----CCCU----GCUGG- -5'
20801 3' -63.6 NC_004689.1 + 36881 1.01 0.00144
Target:  5'- cCCCGGUCGCCCCAC-GCGGGACGACCu -3'
miRNA:   3'- -GGGCCAGCGGGGUGcCGCCCUGCUGG- -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.