miRNA display CGI


Results 1 - 20 of 58 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
11479 3' -59.1 NC_003085.1 + 686 0.66 0.493615
Target:  5'- -aCCUGUCCcgcGUCcgGCCUCGGGCGcG-GCc -3'
miRNA:   3'- acGGACGGG---UAG--UGGAGCCUGC-CaCG- -5'
11479 3' -59.1 NC_003085.1 + 858 0.69 0.330046
Target:  5'- cGCgCUGCCCGaaggCACUccgCaGACGGUGUg -3'
miRNA:   3'- aCG-GACGGGUa---GUGGa--GcCUGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 1482 0.82 0.039502
Target:  5'- cGCC-GCCCGUCaccgucgccaGCCUCGGcCGGUGCg -3'
miRNA:   3'- aCGGaCGGGUAG----------UGGAGCCuGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 2048 0.7 0.285862
Target:  5'- ---gUGCCCGUCACCauggaugccaaggccCGGACGGUGa -3'
miRNA:   3'- acggACGGGUAGUGGa--------------GCCUGCCACg -5'
11479 3' -59.1 NC_003085.1 + 2253 0.67 0.425199
Target:  5'- aUGCCUGCCCAcCgggggGCCUCGucGCGGa-- -3'
miRNA:   3'- -ACGGACGGGUaG-----UGGAGCc-UGCCacg -5'
11479 3' -59.1 NC_003085.1 + 2836 0.66 0.493615
Target:  5'- cGUCUGCCCggCAgC-CGGGCGaGgaggGCu -3'
miRNA:   3'- aCGGACGGGuaGUgGaGCCUGC-Ca---CG- -5'
11479 3' -59.1 NC_003085.1 + 3844 0.66 0.482515
Target:  5'- cGCaCUGCCCAUCcaggACCaCGGcgcgucgACGGcGCg -3'
miRNA:   3'- aCG-GACGGGUAG----UGGaGCC-------UGCCaCG- -5'
11479 3' -59.1 NC_003085.1 + 5709 0.68 0.388729
Target:  5'- aGCCcgcGCCCAcCACCggggCGGACccggcucgGGUGUc -3'
miRNA:   3'- aCGGa--CGGGUaGUGGa---GCCUG--------CCACG- -5'
11479 3' -59.1 NC_003085.1 + 5796 0.68 0.37128
Target:  5'- cGCCgugGCCUu---CgUCGGAgCGGUGCg -3'
miRNA:   3'- aCGGa--CGGGuaguGgAGCCU-GCCACG- -5'
11479 3' -59.1 NC_003085.1 + 6537 0.68 0.37128
Target:  5'- cGCCgUGgCCAUCAUC-CGGucaACGGUGg -3'
miRNA:   3'- aCGG-ACgGGUAGUGGaGCC---UGCCACg -5'
11479 3' -59.1 NC_003085.1 + 6758 0.7 0.264579
Target:  5'- gGCCUGCCg--CGCCguggCGGACGGcgagaGCc -3'
miRNA:   3'- aCGGACGGguaGUGGa---GCCUGCCa----CG- -5'
11479 3' -59.1 NC_003085.1 + 8178 0.69 0.314525
Target:  5'- gUGCUUGCgCAgCGCUUCGGcgucuCGGUGUc -3'
miRNA:   3'- -ACGGACGgGUaGUGGAGCCu----GCCACG- -5'
11479 3' -59.1 NC_003085.1 + 8658 0.67 0.406708
Target:  5'- gGCCgggacGCgCGUgGCCUUGGGCgccggGGUGCc -3'
miRNA:   3'- aCGGa----CGgGUAgUGGAGCCUG-----CCACG- -5'
11479 3' -59.1 NC_003085.1 + 11576 0.69 0.306974
Target:  5'- cGuCCUGCCCG-CGCCUggcUGGaACGGgGCa -3'
miRNA:   3'- aC-GGACGGGUaGUGGA---GCC-UGCCaCG- -5'
11479 3' -59.1 NC_003085.1 + 12320 0.73 0.174585
Target:  5'- cGCCagggUGCCCgccGUCGCCgugcccggCGuGACGGUGCc -3'
miRNA:   3'- aCGG----ACGGG---UAGUGGa-------GC-CUGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 12770 0.67 0.434631
Target:  5'- gGCCuggggugaUGCCCcugcCGCCguugUCGGGCaGGUGCu -3'
miRNA:   3'- aCGG--------ACGGGua--GUGG----AGCCUG-CCACG- -5'
11479 3' -59.1 NC_003085.1 + 16045 1.1 0.000304
Target:  5'- cUGCCUGCCCAUCACCUCGGACGGUGCc -3'
miRNA:   3'- -ACGGACGGGUAGUGGAGCCUGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 16672 0.66 0.473523
Target:  5'- gGCgCUGCCUGUCgACCUgcuacacgcaGGGCGGggGCu -3'
miRNA:   3'- aCG-GACGGGUAG-UGGAg---------CCUGCCa-CG- -5'
11479 3' -59.1 NC_003085.1 + 16900 0.67 0.41589
Target:  5'- cGCCUccgccaacucGCUCAugUCGCUgagcuuguUCGcGACGGUGCg -3'
miRNA:   3'- aCGGA----------CGGGU--AGUGG--------AGC-CUGCCACG- -5'
11479 3' -59.1 NC_003085.1 + 18173 0.71 0.227058
Target:  5'- cGCCUGCCCG-CGCUUacCGGAUGGcagGUc -3'
miRNA:   3'- aCGGACGGGUaGUGGA--GCCUGCCa--CG- -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.