miRNA display CGI


Results 1 - 20 of 28 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
12138 5' -53.1 NC_003309.1 + 21960 1.12 0.001016
Target:  5'- gCGCGGCAUUCAUCACGCGUGAAGCGCu -3'
miRNA:   3'- -GCGCCGUAAGUAGUGCGCACUUCGCG- -5'
12138 5' -53.1 NC_003309.1 + 12058 0.79 0.181348
Target:  5'- cCGCGGCGUUgGUggaUACGCGUGAcgucuGCGCc -3'
miRNA:   3'- -GCGCCGUAAgUA---GUGCGCACUu----CGCG- -5'
12138 5' -53.1 NC_003309.1 + 11547 0.77 0.24379
Target:  5'- uGCGGCcacGUUCAUCGC-CGUGAGugcuuGCGCg -3'
miRNA:   3'- gCGCCG---UAAGUAGUGcGCACUU-----CGCG- -5'
12138 5' -53.1 NC_003309.1 + 17815 0.74 0.380144
Target:  5'- gCGuCGGCGaUCGUCGCcgugugcgcguucgGCGUGAuacGGCGCa -3'
miRNA:   3'- -GC-GCCGUaAGUAGUG--------------CGCACU---UCGCG- -5'
12138 5' -53.1 NC_003309.1 + 32981 0.72 0.490343
Target:  5'- uCGCaGCccgCAcCGCGCGcUGAGGCGCg -3'
miRNA:   3'- -GCGcCGuaaGUaGUGCGC-ACUUCGCG- -5'
12138 5' -53.1 NC_003309.1 + 22664 0.71 0.543659
Target:  5'- gGCGGCGgcacCAUCGCccacgccgGCGgcgcugGAAGCGCc -3'
miRNA:   3'- gCGCCGUaa--GUAGUG--------CGCa-----CUUCGCG- -5'
12138 5' -53.1 NC_003309.1 + 16020 0.71 0.554563
Target:  5'- gGCGGCGUagUCAUCGgaUGCG---AGCGCg -3'
miRNA:   3'- gCGCCGUA--AGUAGU--GCGCacuUCGCG- -5'
12138 5' -53.1 NC_003309.1 + 9709 0.7 0.56553
Target:  5'- aGCGGUugccgugUGUCGCGCGcGAuGCGCa -3'
miRNA:   3'- gCGCCGuaa----GUAGUGCGCaCUuCGCG- -5'
12138 5' -53.1 NC_003309.1 + 22455 0.7 0.575449
Target:  5'- gCGCGGCGaUCG-CACGCugccggcGUcGAGCGCg -3'
miRNA:   3'- -GCGCCGUaAGUaGUGCG-------CAcUUCGCG- -5'
12138 5' -53.1 NC_003309.1 + 49887 0.68 0.720622
Target:  5'- -cCGGCucaaGUUcCAUCGCGCGaauGAGCGCg -3'
miRNA:   3'- gcGCCG----UAA-GUAGUGCGCac-UUCGCG- -5'
12138 5' -53.1 NC_003309.1 + 46260 0.68 0.687819
Target:  5'- aGCGGCAUcgAUCaACGCcUGAAccuucGCGCg -3'
miRNA:   3'- gCGCCGUAagUAG-UGCGcACUU-----CGCG- -5'
12138 5' -53.1 NC_003309.1 + 47924 0.68 0.698824
Target:  5'- -uCGGUcgUCGcgCACGCGUGccGUGCc -3'
miRNA:   3'- gcGCCGuaAGUa-GUGCGCACuuCGCG- -5'
12138 5' -53.1 NC_003309.1 + 4988 0.68 0.709762
Target:  5'- aGCGGC-UUC--CGCGCGUucGAucuGCGCg -3'
miRNA:   3'- gCGCCGuAAGuaGUGCGCA--CUu--CGCG- -5'
12138 5' -53.1 NC_003309.1 + 27207 0.68 0.71954
Target:  5'- aGCGGCGcagcCAcgcugccguugauUCGCGCGUGuuguagaccGGCGCg -3'
miRNA:   3'- gCGCCGUaa--GU-------------AGUGCGCACu--------UCGCG- -5'
12138 5' -53.1 NC_003309.1 + 3256 0.67 0.742058
Target:  5'- aGCGGCcugaaCGUCAUGCccuccugcaGGAGCGCa -3'
miRNA:   3'- gCGCCGuaa--GUAGUGCGca-------CUUCGCG- -5'
12138 5' -53.1 NC_003309.1 + 43528 0.67 0.763037
Target:  5'- cCGuCGGCGgcCAUCGCGCGcaucAGGuCGCg -3'
miRNA:   3'- -GC-GCCGUaaGUAGUGCGCac--UUC-GCG- -5'
12138 5' -53.1 NC_003309.1 + 11983 0.67 0.773325
Target:  5'- gCGCGGCAgccgCggCGCGCGccgcgucggcguUGAAGC-Cg -3'
miRNA:   3'- -GCGCCGUaa--GuaGUGCGC------------ACUUCGcG- -5'
12138 5' -53.1 NC_003309.1 + 31749 0.67 0.773325
Target:  5'- -uCGGCAg-CAUCAUGCGcGAugAGCGUg -3'
miRNA:   3'- gcGCCGUaaGUAGUGCGCaCU--UCGCG- -5'
12138 5' -53.1 NC_003309.1 + 45881 0.67 0.793439
Target:  5'- uCGCGcGCGUUgAUCACGCGgcGAcGGcCGUc -3'
miRNA:   3'- -GCGC-CGUAAgUAGUGCGCa-CU-UC-GCG- -5'
12138 5' -53.1 NC_003309.1 + 18842 0.66 0.8405
Target:  5'- gCGCGGCAagCGUCAC-CGUGucacCGUu -3'
miRNA:   3'- -GCGCCGUaaGUAGUGcGCACuuc-GCG- -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.