miRNA display CGI


Results 1 - 20 of 30 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
29573 3' -55.3 NC_006151.1 + 71766 0.66 0.93613
Target:  5'- ----cGUGGUCCugcggcagcggcGGCGggGgCUgCCGCa -3'
miRNA:   3'- cuacaCACCAGG------------CUGCuuCgGA-GGCG- -5'
29573 3' -55.3 NC_006151.1 + 98626 0.66 0.933144
Target:  5'- ----aGUGGUgcgccgccuUCGACGAGGCCcuggcgggcgcgcgcUCCGCc -3'
miRNA:   3'- cuacaCACCA---------GGCUGCUUCGG---------------AGGCG- -5'
29573 3' -55.3 NC_006151.1 + 128139 0.66 0.92584
Target:  5'- ----cGUGGgcccgCCGuACGAGGCCaggCUGCg -3'
miRNA:   3'- cuacaCACCa----GGC-UGCUUCGGa--GGCG- -5'
29573 3' -55.3 NC_006151.1 + 106233 0.66 0.92584
Target:  5'- uGGUGgccgcgGUGG-CCGGCGA-GCCgaCGCa -3'
miRNA:   3'- -CUACa-----CACCaGGCUGCUuCGGagGCG- -5'
29573 3' -55.3 NC_006151.1 + 107290 0.66 0.92584
Target:  5'- -cUGUacGG-CCGGCcGAGCUUCCGCa -3'
miRNA:   3'- cuACAcaCCaGGCUGcUUCGGAGGCG- -5'
29573 3' -55.3 NC_006151.1 + 88190 0.66 0.925301
Target:  5'- cGGUGUcggcggcGUGGUCggaccaGGCGAGgcgcGCCUCCGg -3'
miRNA:   3'- -CUACA-------CACCAGg-----CUGCUU----CGGAGGCg -5'
29573 3' -55.3 NC_006151.1 + 88094 0.66 0.922566
Target:  5'- aGGUGUaGUcgacgggcccgucgaGGUCCGACagcgggcGGGCgCUCCGCa -3'
miRNA:   3'- -CUACA-CA---------------CCAGGCUGc------UUCG-GAGGCG- -5'
29573 3' -55.3 NC_006151.1 + 141484 0.66 0.920334
Target:  5'- ------cGaGUCCGA--GAGCCUCCGCg -3'
miRNA:   3'- cuacacaC-CAGGCUgcUUCGGAGGCG- -5'
29573 3' -55.3 NC_006151.1 + 89511 0.66 0.918065
Target:  5'- gGGUGUggcgcagcggacGUGGUCCGccucgagcagcgcCGAGGCCgguggaggCCGCg -3'
miRNA:   3'- -CUACA------------CACCAGGCu------------GCUUCGGa-------GGCG- -5'
29573 3' -55.3 NC_006151.1 + 722 0.66 0.914588
Target:  5'- --cGgg-GGUCCGcggGCgGggGCUUCCGCu -3'
miRNA:   3'- cuaCacaCCAGGC---UG-CuuCGGAGGCG- -5'
29573 3' -55.3 NC_006151.1 + 49635 0.66 0.914588
Target:  5'- aGUGgggGUGGgCCGugGAGGaggucgagcCCUCCGg -3'
miRNA:   3'- cUACa--CACCaGGCugCUUC---------GGAGGCg -5'
29573 3' -55.3 NC_006151.1 + 137060 0.66 0.914588
Target:  5'- cGGUGUaccgcGUGGagcuggcgcaCCGGCGccAGGCCUUCGCg -3'
miRNA:   3'- -CUACA-----CACCa---------GGCUGC--UUCGGAGGCG- -5'
29573 3' -55.3 NC_006151.1 + 86779 0.66 0.914001
Target:  5'- cGAUGUGggcgGGgcuUCUGccuaaaaGCGggGCCUCCccgGCg -3'
miRNA:   3'- -CUACACa---CC---AGGC-------UGCuuCGGAGG---CG- -5'
29573 3' -55.3 NC_006151.1 + 89264 0.66 0.908603
Target:  5'- --cGUcGUGGUCgacggcgccgCGGCGAuGGCCgCCGCg -3'
miRNA:   3'- cuaCA-CACCAG----------GCUGCU-UCGGaGGCG- -5'
29573 3' -55.3 NC_006151.1 + 3414 0.66 0.908603
Target:  5'- --cGUGUGGgucucgCCGGCcgggacgcggcgGAAGCCgCCGUc -3'
miRNA:   3'- cuaCACACCa-----GGCUG------------CUUCGGaGGCG- -5'
29573 3' -55.3 NC_006151.1 + 2958 0.67 0.902381
Target:  5'- ------cGGcgCCGGCGAAGCCgaggucCCGCg -3'
miRNA:   3'- cuacacaCCa-GGCUGCUUCGGa-----GGCG- -5'
29573 3' -55.3 NC_006151.1 + 5723 0.67 0.895924
Target:  5'- uGUGcugGUGGcgCCGGggucCGAGGCCgcgCCGCc -3'
miRNA:   3'- cUACa--CACCa-GGCU----GCUUCGGa--GGCG- -5'
29573 3' -55.3 NC_006151.1 + 141562 0.67 0.889235
Target:  5'- ------gGGUCCGGCGcGAuCCUCCGCc -3'
miRNA:   3'- cuacacaCCAGGCUGC-UUcGGAGGCG- -5'
29573 3' -55.3 NC_006151.1 + 103998 0.67 0.882318
Target:  5'- ----cGUGGcggCCGugGAGGCgCgCCGCg -3'
miRNA:   3'- cuacaCACCa--GGCugCUUCG-GaGGCG- -5'
29573 3' -55.3 NC_006151.1 + 84477 0.67 0.882318
Target:  5'- ----cGUGGUUCGccuuCGAGGCCgCUGCg -3'
miRNA:   3'- cuacaCACCAGGCu---GCUUCGGaGGCG- -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.