miRNA display CGI


Results 1 - 20 of 72 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
23386 3' -57.8 NC_005259.1 + 37219 0.66 0.645687
Target:  5'- -cGCcGCCGCCGGGGCGcuGGC-CCgugcCGg -3'
miRNA:   3'- ucUGaCGGUGGCUCCGU--UCGuGGa---GC- -5'
23386 3' -57.8 NC_005259.1 + 40651 0.73 0.262708
Target:  5'- gAGAaagucaUGCuCGCCGAGcagcGCGAGCGCCUUGg -3'
miRNA:   3'- -UCUg-----ACG-GUGGCUC----CGUUCGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 37716 0.73 0.269329
Target:  5'- --cCUGCCAgacCCGAGGCAccgccgccgacgAGCugCUCGa -3'
miRNA:   3'- ucuGACGGU---GGCUCCGU------------UCGugGAGC- -5'
23386 3' -57.8 NC_005259.1 + 47834 0.72 0.282973
Target:  5'- -cGCUGCCGCUGAcGGUgcgagcuuuucGAGCGCCUUGu -3'
miRNA:   3'- ucUGACGGUGGCU-CCG-----------UUCGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 36944 0.72 0.289998
Target:  5'- -uGCUGUCACCGGGGUgcccgcGAGacCGCCUCGg -3'
miRNA:   3'- ucUGACGGUGGCUCCG------UUC--GUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 46583 0.71 0.32717
Target:  5'- cGACcgcGCCGcCCGAGGCGagcAGCGCgUCGu -3'
miRNA:   3'- uCUGa--CGGU-GGCUCCGU---UCGUGgAGC- -5'
23386 3' -57.8 NC_005259.1 + 34110 0.71 0.32717
Target:  5'- gAGAacgUGUCGCCGGGcGCGAGCACgUCc -3'
miRNA:   3'- -UCUg--ACGGUGGCUC-CGUUCGUGgAGc -5'
23386 3' -57.8 NC_005259.1 + 38954 0.7 0.367757
Target:  5'- -cGCUGCCGCCGAGaGCcuGCACgaUGg -3'
miRNA:   3'- ucUGACGGUGGCUC-CGuuCGUGgaGC- -5'
23386 3' -57.8 NC_005259.1 + 44621 0.7 0.384933
Target:  5'- --gUUGCCGCCGuAGGUu-GCGCCUUGa -3'
miRNA:   3'- ucuGACGGUGGC-UCCGuuCGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 46241 0.73 0.243638
Target:  5'- cGGCUGCCGCCuGAGGCAcGUcgACCcCGa -3'
miRNA:   3'- uCUGACGGUGG-CUCCGUuCG--UGGaGC- -5'
23386 3' -57.8 NC_005259.1 + 63179 0.74 0.233946
Target:  5'- ----cGCCGCCGAGGUGAucgcaccccggucguGCGCCUCGa -3'
miRNA:   3'- ucugaCGGUGGCUCCGUU---------------CGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 1844 0.74 0.231574
Target:  5'- -cGCUGCCGCCGAGGCcgagaAAGcCGCCgccgCGu -3'
miRNA:   3'- ucUGACGGUGGCUCCG-----UUC-GUGGa---GC- -5'
23386 3' -57.8 NC_005259.1 + 34531 0.78 0.112939
Target:  5'- cGACUGaCCACCGAGGCA---GCCUCa -3'
miRNA:   3'- uCUGAC-GGUGGCUCCGUucgUGGAGc -5'
23386 3' -57.8 NC_005259.1 + 8665 0.78 0.129474
Target:  5'- cGGGCUGCCACgCG-GGCAacggGGCcGCCUCGa -3'
miRNA:   3'- -UCUGACGGUG-GCuCCGU----UCG-UGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 61838 0.77 0.140443
Target:  5'- --gUUGCUGCCaGGGGUGAGCACCUCGg -3'
miRNA:   3'- ucuGACGGUGG-CUCCGUUCGUGGAGC- -5'
23386 3' -57.8 NC_005259.1 + 46069 0.75 0.188272
Target:  5'- -aGCUGCUcaagcaccGCCGGGGCGAGCgguGCCUCa -3'
miRNA:   3'- ucUGACGG--------UGGCUCCGUUCG---UGGAGc -5'
23386 3' -57.8 NC_005259.1 + 23353 0.75 0.193268
Target:  5'- gAGGCUGCCugCGAGGCcgccgAGGCAUggaUCGu -3'
miRNA:   3'- -UCUGACGGugGCUCCG-----UUCGUGg--AGC- -5'
23386 3' -57.8 NC_005259.1 + 26140 0.75 0.203609
Target:  5'- cGAC-GCCGCCGAGGCcGAGCAgCC-CGa -3'
miRNA:   3'- uCUGaCGGUGGCUCCG-UUCGU-GGaGC- -5'
23386 3' -57.8 NC_005259.1 + 13232 0.74 0.225734
Target:  5'- cGACcgGCCACCGugaGGGcCGAGCACC-CGg -3'
miRNA:   3'- uCUGa-CGGUGGC---UCC-GUUCGUGGaGC- -5'
23386 3' -57.8 NC_005259.1 + 49581 0.74 0.225734
Target:  5'- cAGACcgGCgGgCGGGGUcAGCACCUCGa -3'
miRNA:   3'- -UCUGa-CGgUgGCUCCGuUCGUGGAGC- -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.