miRNA display CGI


Results 1 - 20 of 31 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
9287 5' -58.3 NC_002512.2 + 22127 0.66 0.902419
Target:  5'- aCCACCacgGcgGcGGCUCCaCCCCGGAg-- -3'
miRNA:   3'- -GGUGGga-Ca-C-CCGAGG-GGGGUUUaca -5'
9287 5' -58.3 NC_002512.2 + 69142 0.66 0.896251
Target:  5'- -uGCCCg--GGGCcggcgccguUCCCCCCGAAa-- -3'
miRNA:   3'- ggUGGGacaCCCG---------AGGGGGGUUUaca -5'
9287 5' -58.3 NC_002512.2 + 149170 0.66 0.893724
Target:  5'- gCCGCCCgc-GGGCccgcgcgcccucgCCCCCCGGAc-- -3'
miRNA:   3'- -GGUGGGacaCCCGa------------GGGGGGUUUaca -5'
9287 5' -58.3 NC_002512.2 + 16530 0.66 0.889871
Target:  5'- gCCGCCagcGcGGGCgUCCCCCUggcuccGGAUGUa -3'
miRNA:   3'- -GGUGGga-CaCCCG-AGGGGGG------UUUACA- -5'
9287 5' -58.3 NC_002512.2 + 44352 0.67 0.862304
Target:  5'- uUCGCCCUGUGGuGCgCCCUgU--GUGUg -3'
miRNA:   3'- -GGUGGGACACC-CGaGGGGgGuuUACA- -5'
9287 5' -58.3 NC_002512.2 + 10045 0.67 0.854923
Target:  5'- uCCGCCCcc-GGGCcggaCCCCCCGAccGa -3'
miRNA:   3'- -GGUGGGacaCCCGa---GGGGGGUUuaCa -5'
9287 5' -58.3 NC_002512.2 + 155702 0.67 0.854923
Target:  5'- gCCGCCCUGUGccGGCg-CCUCCAccUGg -3'
miRNA:   3'- -GGUGGGACAC--CCGagGGGGGUuuACa -5'
9287 5' -58.3 NC_002512.2 + 137202 0.67 0.850404
Target:  5'- uCCGCCCgGUGGGCggcgcgCCCggcgcgggcggccguCCCGGAUc- -3'
miRNA:   3'- -GGUGGGaCACCCGa-----GGG---------------GGGUUUAca -5'
9287 5' -58.3 NC_002512.2 + 201828 0.67 0.847356
Target:  5'- gCGCCCgg-GGGCUCCUUCCGc---- -3'
miRNA:   3'- gGUGGGacaCCCGAGGGGGGUuuaca -5'
9287 5' -58.3 NC_002512.2 + 133370 0.67 0.839609
Target:  5'- aCCGCCg-GcGcGGCUCCCUCCGGcgGUc -3'
miRNA:   3'- -GGUGGgaCaC-CCGAGGGGGGUUuaCA- -5'
9287 5' -58.3 NC_002512.2 + 45729 0.68 0.8236
Target:  5'- aCCGCCCUacgccaUGGcGCUaCCCCCCAu---- -3'
miRNA:   3'- -GGUGGGAc-----ACC-CGA-GGGGGGUuuaca -5'
9287 5' -58.3 NC_002512.2 + 224705 0.68 0.806952
Target:  5'- cCCGCCCUGcugGGGCcggccgCCgCCCCGGu--- -3'
miRNA:   3'- -GGUGGGACa--CCCGa-----GG-GGGGUUuaca -5'
9287 5' -58.3 NC_002512.2 + 21855 0.68 0.798405
Target:  5'- aCCACCCgGgccaGGGuCUCCgCCCCGAc--- -3'
miRNA:   3'- -GGUGGGaCa---CCC-GAGG-GGGGUUuaca -5'
9287 5' -58.3 NC_002512.2 + 177680 0.68 0.794947
Target:  5'- gCCGCCaguuugcgguagaUGgggaucagGGGCUUCCCCCAGGUcGUg -3'
miRNA:   3'- -GGUGGg------------ACa-------CCCGAGGGGGGUUUA-CA- -5'
9287 5' -58.3 NC_002512.2 + 118699 0.69 0.762911
Target:  5'- gCGCC--GUGGGCUUCCCCCGc---- -3'
miRNA:   3'- gGUGGgaCACCCGAGGGGGGUuuaca -5'
9287 5' -58.3 NC_002512.2 + 121498 0.69 0.753751
Target:  5'- cCCACCCaccGGGCUCgCCCCCc----- -3'
miRNA:   3'- -GGUGGGacaCCCGAG-GGGGGuuuaca -5'
9287 5' -58.3 NC_002512.2 + 105894 0.7 0.716205
Target:  5'- cCCACCCgGUGGGCUCgCCgUCGuc-GUa -3'
miRNA:   3'- -GGUGGGaCACCCGAG-GGgGGUuuaCA- -5'
9287 5' -58.3 NC_002512.2 + 24781 0.7 0.716205
Target:  5'- cCCGCUCggGUccGGGCgcgCCCCCCGAGg-- -3'
miRNA:   3'- -GGUGGGa-CA--CCCGa--GGGGGGUUUaca -5'
9287 5' -58.3 NC_002512.2 + 109395 0.72 0.589442
Target:  5'- aCCAUCCUG-GGGUUCCUggCCCAGAa-- -3'
miRNA:   3'- -GGUGGGACaCCCGAGGG--GGGUUUaca -5'
9287 5' -58.3 NC_002512.2 + 120061 0.72 0.579701
Target:  5'- gCCGCCCcagGGGaCUCCCCUCAGAcUGa -3'
miRNA:   3'- -GGUGGGacaCCC-GAGGGGGGUUU-ACa -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.