miRNA display CGI


Results 1 - 20 of 51 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
18979 3' -63.7 NC_004684.1 + 2295 0.66 0.385238
Target:  5'- gACCaUGuuguCCUCGGCGUaguggccguGCGGCaCCUCg -3'
miRNA:   3'- -UGGcACu---GGGGCCGCA---------UGCCGgGGAG- -5'
18979 3' -63.7 NC_004684.1 + 32812 0.66 0.385238
Target:  5'- cACCGUGugCagCGGCGUggAUGGUUCC-Ca -3'
miRNA:   3'- -UGGCACugGg-GCCGCA--UGCCGGGGaG- -5'
18979 3' -63.7 NC_004684.1 + 19443 0.66 0.384405
Target:  5'- cACCGUGcgcccauGCCCgGGCGgcgGUGGCCCg-- -3'
miRNA:   3'- -UGGCAC-------UGGGgCCGCa--UGCCGGGgag -5'
18979 3' -63.7 NC_004684.1 + 64038 0.66 0.37697
Target:  5'- cACCGUGGCCauGuG-GUACGGCaCCCa- -3'
miRNA:   3'- -UGGCACUGGggC-CgCAUGCCG-GGGag -5'
18979 3' -63.7 NC_004684.1 + 33461 0.66 0.37697
Target:  5'- cGCUGUGgucuGCCUCGGCG-GCGGCUgCg- -3'
miRNA:   3'- -UGGCAC----UGGGGCCGCaUGCCGGgGag -5'
18979 3' -63.7 NC_004684.1 + 34072 0.66 0.37697
Target:  5'- cACCGgcGACCCUGGCGcgGCGGgCgCg- -3'
miRNA:   3'- -UGGCa-CUGGGGCCGCa-UGCCgGgGag -5'
18979 3' -63.7 NC_004684.1 + 13258 0.66 0.368824
Target:  5'- gGCCGUGACCgCCaGCGcGCugguGGCCgCCg- -3'
miRNA:   3'- -UGGCACUGG-GGcCGCaUG----CCGG-GGag -5'
18979 3' -63.7 NC_004684.1 + 54880 0.66 0.360798
Target:  5'- gUCGUGGCCCucacaacgugCGGCacgagGCGGCCCUg- -3'
miRNA:   3'- uGGCACUGGG----------GCCGca---UGCCGGGGag -5'
18979 3' -63.7 NC_004684.1 + 64525 0.66 0.360798
Target:  5'- cACCGaUGACgCCCaGCGgcucgGCGGCCUUg- -3'
miRNA:   3'- -UGGC-ACUG-GGGcCGCa----UGCCGGGGag -5'
18979 3' -63.7 NC_004684.1 + 66967 0.66 0.352896
Target:  5'- aGCCGUcGACCUCGGgGUGCcagucGCCCa-- -3'
miRNA:   3'- -UGGCA-CUGGGGCCgCAUGc----CGGGgag -5'
18979 3' -63.7 NC_004684.1 + 25006 0.66 0.352896
Target:  5'- cGCCGcccagcgcgcUGAUCgCGGCG-GCGGCCaUCUCg -3'
miRNA:   3'- -UGGC----------ACUGGgGCCGCaUGCCGG-GGAG- -5'
18979 3' -63.7 NC_004684.1 + 65449 0.66 0.345116
Target:  5'- gACCGUcGCCCUGGUGgcccugGgGGCCgCCaUCg -3'
miRNA:   3'- -UGGCAcUGGGGCCGCa-----UgCCGG-GG-AG- -5'
18979 3' -63.7 NC_004684.1 + 12823 0.66 0.345116
Target:  5'- -gCGUcGACCUCGGCcugGUccACGGCCUCUg -3'
miRNA:   3'- ugGCA-CUGGGGCCG---CA--UGCCGGGGAg -5'
18979 3' -63.7 NC_004684.1 + 28423 0.67 0.340508
Target:  5'- uGCUGguugcgcuugGACCCCGGCGcgUacucguucaugaugcGCGGCUCCUg -3'
miRNA:   3'- -UGGCa---------CUGGGGCCGC--A---------------UGCCGGGGAg -5'
18979 3' -63.7 NC_004684.1 + 9879 0.67 0.329929
Target:  5'- cACCGgcgcagGGCCUCGGCGUAgaGGUCuuccacgcaggCCUCg -3'
miRNA:   3'- -UGGCa-----CUGGGGCCGCAUg-CCGG-----------GGAG- -5'
18979 3' -63.7 NC_004684.1 + 1895 0.67 0.322523
Target:  5'- gGCCGaUGACaCCGGCG-ACcucGCCCUUCu -3'
miRNA:   3'- -UGGC-ACUGgGGCCGCaUGc--CGGGGAG- -5'
18979 3' -63.7 NC_004684.1 + 42221 0.67 0.322523
Target:  5'- -aCGUGGCCgCCGGUGU-CGGCaCCg- -3'
miRNA:   3'- ugGCACUGG-GGCCGCAuGCCGgGGag -5'
18979 3' -63.7 NC_004684.1 + 3032 0.67 0.315241
Target:  5'- cGCCGaUGGCCUCGGUGcuCGGCaccggaggcaCCUCg -3'
miRNA:   3'- -UGGC-ACUGGGGCCGCauGCCGg---------GGAG- -5'
18979 3' -63.7 NC_004684.1 + 26440 0.67 0.315241
Target:  5'- cGCCgGUGG-CCCGGUGUACGGCggcacgCCUg -3'
miRNA:   3'- -UGG-CACUgGGGCCGCAUGCCGg-----GGAg -5'
18979 3' -63.7 NC_004684.1 + 37579 0.67 0.308084
Target:  5'- aGCUGgagGugCCCGGCaucgguaccGUGCGGgCCCg- -3'
miRNA:   3'- -UGGCa--CugGGGCCG---------CAUGCCgGGGag -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.