miRNA display CGI


Results 1 - 20 of 25 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
11892 3' -54.1 NC_003266.2 + 1848 0.69 0.447734
Target:  5'- aCUACUCCuGGCagaaccACUGCa-GCAGUAGCCu -3'
miRNA:   3'- -GAUGAGG-CCG------UGACGgaUGUUGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 1998 0.71 0.361133
Target:  5'- --uCUCCGGCuACuUGCCggu-ACAGCCg -3'
miRNA:   3'- gauGAGGCCG-UG-ACGGauguUGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 2930 0.68 0.533511
Target:  5'- aUGCUUgaucuUGGCAUUGCCcuUGCAcagcacaaaACAGCCc -3'
miRNA:   3'- gAUGAG-----GCCGUGACGG--AUGU---------UGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 3695 0.68 0.533511
Target:  5'- -cGCgcaCGGCGCUGgCggcagaaGCAGCAGCUg -3'
miRNA:   3'- gaUGag-GCCGUGACgGa------UGUUGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 5870 0.67 0.567222
Target:  5'- -gACccCCGGuCACgugGCCUACAcuuACaAGCCa -3'
miRNA:   3'- gaUGa-GGCC-GUGa--CGGAUGU---UG-UCGG- -5'
11892 3' -54.1 NC_003266.2 + 8024 0.67 0.60145
Target:  5'- cCUGCaUCUGGUGCUGUaCUACGucguggugguCGGCCu -3'
miRNA:   3'- -GAUG-AGGCCGUGACG-GAUGUu---------GUCGG- -5'
11892 3' -54.1 NC_003266.2 + 9303 0.68 0.544676
Target:  5'- uCUGC-CCGuGCGCcGCCgGCGACgcaGGCCc -3'
miRNA:   3'- -GAUGaGGC-CGUGaCGGaUGUUG---UCGG- -5'
11892 3' -54.1 NC_003266.2 + 10167 0.66 0.612929
Target:  5'- -cGC-CCGGCGCccccGCCaccgaGCGAUGGCCg -3'
miRNA:   3'- gaUGaGGCCGUGa---CGGa----UGUUGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 10812 0.74 0.231475
Target:  5'- cCUACgcaacagCCGGCGCuucUGCCUccgccccaGCAGCAGCa -3'
miRNA:   3'- -GAUGa------GGCCGUG---ACGGA--------UGUUGUCGg -5'
11892 3' -54.1 NC_003266.2 + 10937 0.72 0.310229
Target:  5'- uCUGC-CCGGCcCcGCUcACGGCGGCCg -3'
miRNA:   3'- -GAUGaGGCCGuGaCGGaUGUUGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 11004 0.66 0.612929
Target:  5'- -cGCUCCGGCgACgacGCCcccagGCGcgcCAGCCc -3'
miRNA:   3'- gaUGAGGCCG-UGa--CGGa----UGUu--GUCGG- -5'
11892 3' -54.1 NC_003266.2 + 11805 0.69 0.458053
Target:  5'- gCUACUUUgacaugGGCGCgGaCCUGCAcugGCAGCCc -3'
miRNA:   3'- -GAUGAGG------CCGUGaC-GGAUGU---UGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 12288 0.66 0.647435
Target:  5'- -cGCUCCaGCAgUGCguugUACAcCAGCCc -3'
miRNA:   3'- gaUGAGGcCGUgACGg---AUGUuGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 13285 0.68 0.544676
Target:  5'- ---gUCCGGCcgcacggguGCUGCC-GCAGCGGUg -3'
miRNA:   3'- gaugAGGCCG---------UGACGGaUGUUGUCGg -5'
11892 3' -54.1 NC_003266.2 + 13357 0.67 0.555916
Target:  5'- --cCUCgGGCACcG-CUGCGGCAGCa -3'
miRNA:   3'- gauGAGgCCGUGaCgGAUGUUGUCGg -5'
11892 3' -54.1 NC_003266.2 + 13616 0.66 0.635933
Target:  5'- uUACgggCGGCACUGCCc-CGGCugguGGCCc -3'
miRNA:   3'- gAUGag-GCCGUGACGGauGUUG----UCGG- -5'
11892 3' -54.1 NC_003266.2 + 14872 0.69 0.479066
Target:  5'- gUGCUCuCGGacaagaaaaaCACcGCCUACcGCAGCUg -3'
miRNA:   3'- gAUGAG-GCC----------GUGaCGGAUGuUGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 15340 0.67 0.589999
Target:  5'- -gACUccCCGGaUACUGCUgcGCAGCGGCa -3'
miRNA:   3'- gaUGA--GGCC-GUGACGGa-UGUUGUCGg -5'
11892 3' -54.1 NC_003266.2 + 18573 1.12 0.000419
Target:  5'- cCUACUCCGGCACUGCCUACAACAGCCu -3'
miRNA:   3'- -GAUGAGGCCGUGACGGAUGUUGUCGG- -5'
11892 3' -54.1 NC_003266.2 + 22520 0.73 0.286899
Target:  5'- -gACUUCGGUACaGCCgu--GCAGCCa -3'
miRNA:   3'- gaUGAGGCCGUGaCGGauguUGUCGG- -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.