miRNA display CGI


Results 1 - 20 of 26 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
30505 3' -62.8 NC_006548.1 + 36590 0.66 0.289111
Target:  5'- gCCGcGGCCgGCaCCGCGGUGCucgCgCGGGg -3'
miRNA:   3'- -GGU-CCGGgCG-GGCGUCGCGca-G-GUUC- -5'
30505 3' -62.8 NC_006548.1 + 9447 0.66 0.282107
Target:  5'- uCgAGGUCaGCUCGCGGCuacuuGCGUCCGc- -3'
miRNA:   3'- -GgUCCGGgCGGGCGUCG-----CGCAGGUuc -5'
30505 3' -62.8 NC_006548.1 + 19186 0.66 0.282107
Target:  5'- cCCAGcGCugcgCUGCCCGCguugAGCaCGUCCAGu -3'
miRNA:   3'- -GGUC-CG----GGCGGGCG----UCGcGCAGGUUc -5'
30505 3' -62.8 NC_006548.1 + 27296 0.66 0.275239
Target:  5'- gCCuuGGCugCCGCCUcgGCAGCGCGUUg--- -3'
miRNA:   3'- -GGu-CCG--GGCGGG--CGUCGCGCAGguuc -5'
30505 3' -62.8 NC_006548.1 + 31157 0.66 0.268505
Target:  5'- aCuuGCUCGCCaaGCuGCGCGUCCAc- -3'
miRNA:   3'- gGucCGGGCGGg-CGuCGCGCAGGUuc -5'
30505 3' -62.8 NC_006548.1 + 29965 0.66 0.261904
Target:  5'- uCCGGGCCUGgCUGCuucGCGCcuaCAAGa -3'
miRNA:   3'- -GGUCCGGGCgGGCGu--CGCGcagGUUC- -5'
30505 3' -62.8 NC_006548.1 + 5394 0.66 0.25995
Target:  5'- gCCAGGCauuugaagaaguggaGCCC-CGGCGCGccaacgCCGAGg -3'
miRNA:   3'- -GGUCCGgg-------------CGGGcGUCGCGCa-----GGUUC- -5'
30505 3' -62.8 NC_006548.1 + 23797 0.66 0.255436
Target:  5'- cCCAaGCCCGCCgGCcaugccgguGGCGCGaCCcGGc -3'
miRNA:   3'- -GGUcCGGGCGGgCG---------UCGCGCaGGuUC- -5'
30505 3' -62.8 NC_006548.1 + 14522 0.67 0.2491
Target:  5'- gUCAGcGCCuCG-CUGC-GUGCGUCCAGGu -3'
miRNA:   3'- -GGUC-CGG-GCgGGCGuCGCGCAGGUUC- -5'
30505 3' -62.8 NC_006548.1 + 18089 0.67 0.225047
Target:  5'- cCCuuGaCCGCCUGCAGCugugcauaGCGUCCAGc -3'
miRNA:   3'- -GGucCgGGCGGGCGUCG--------CGCAGGUUc -5'
30505 3' -62.8 NC_006548.1 + 20509 0.67 0.219349
Target:  5'- aCCguGGGUgaCUGCUCGCcGCGCGUCCu-- -3'
miRNA:   3'- -GG--UCCG--GGCGGGCGuCGCGCAGGuuc -5'
30505 3' -62.8 NC_006548.1 + 13309 0.67 0.219349
Target:  5'- gCC-GGUuuGCCCGCcgcaggAGCGCGcgCCGAu -3'
miRNA:   3'- -GGuCCGggCGGGCG------UCGCGCa-GGUUc -5'
30505 3' -62.8 NC_006548.1 + 20928 0.67 0.213776
Target:  5'- aCCuGGCCguCGCCCuCGGCGaacUCCAGGg -3'
miRNA:   3'- -GGuCCGG--GCGGGcGUCGCgc-AGGUUC- -5'
30505 3' -62.8 NC_006548.1 + 24436 0.68 0.21049
Target:  5'- cUCGGGCaaCCGCCUgcaauauggccgcuuGCAGCGCGg-CAAGa -3'
miRNA:   3'- -GGUCCG--GGCGGG---------------CGUCGCGCagGUUC- -5'
30505 3' -62.8 NC_006548.1 + 12816 0.68 0.202993
Target:  5'- gCCAGuGCCgCGCgaGCGGCGCGguaagUCCGGu -3'
miRNA:   3'- -GGUC-CGG-GCGggCGUCGCGC-----AGGUUc -5'
30505 3' -62.8 NC_006548.1 + 25072 0.68 0.192686
Target:  5'- cCCA-GCCCGCCC-CGGCcacCGaUCCAGGg -3'
miRNA:   3'- -GGUcCGGGCGGGcGUCGc--GC-AGGUUC- -5'
30505 3' -62.8 NC_006548.1 + 30305 0.68 0.18284
Target:  5'- gUAGGCCUGCCCaGC--CGCGaCCAGGu -3'
miRNA:   3'- gGUCCGGGCGGG-CGucGCGCaGGUUC- -5'
30505 3' -62.8 NC_006548.1 + 14348 0.69 0.164476
Target:  5'- gCAGGUCCGCgauCAGCuCGUCCAGGg -3'
miRNA:   3'- gGUCCGGGCGggcGUCGcGCAGGUUC- -5'
30505 3' -62.8 NC_006548.1 + 12591 0.69 0.15593
Target:  5'- aCCAGGCCaGCUgGuCGGCGcCGgaugCCGAGg -3'
miRNA:   3'- -GGUCCGGgCGGgC-GUCGC-GCa---GGUUC- -5'
30505 3' -62.8 NC_006548.1 + 4617 0.7 0.151809
Target:  5'- gCCGGGCUgGCaaGCAGU-UGUCCGAGg -3'
miRNA:   3'- -GGUCCGGgCGggCGUCGcGCAGGUUC- -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.