miRNA display CGI


Results 1 - 20 of 41 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
27224 5' -58.6 NC_005832.1 + 97276 0.66 0.714923
Target:  5'- aGCCUggCCGG-CCucGAGGC-CCUGGu- -3'
miRNA:   3'- aCGGA--GGCCuGGu-UUCCGaGGACCuc -5'
27224 5' -58.6 NC_005832.1 + 52369 0.66 0.713914
Target:  5'- cGCCUCCaGGGgaGGAgggucguGGCUCCUGGc- -3'
miRNA:   3'- aCGGAGG-CCUggUUU-------CCGAGGACCuc -5'
27224 5' -58.6 NC_005832.1 + 80183 0.66 0.694627
Target:  5'- cGCCUCCauccgacuGGACCAGGGGaC-CCgugaGGAa -3'
miRNA:   3'- aCGGAGG--------CCUGGUUUCC-GaGGa---CCUc -5'
27224 5' -58.6 NC_005832.1 + 72886 0.66 0.694627
Target:  5'- uUGCCUguaGGGCCcucuGGGCcCCUGGGa -3'
miRNA:   3'- -ACGGAgg-CCUGGuu--UCCGaGGACCUc -5'
27224 5' -58.6 NC_005832.1 + 68039 0.66 0.693606
Target:  5'- uUGCCUCCgagguggaggagaGGGgCGGAGGCaUCCUGa-- -3'
miRNA:   3'- -ACGGAGG-------------CCUgGUUUCCG-AGGACcuc -5'
27224 5' -58.6 NC_005832.1 + 20688 0.67 0.663805
Target:  5'- cUGCCuUCCGGAUCGggagcagaguacGAGGCcgcCCUGGc- -3'
miRNA:   3'- -ACGG-AGGCCUGGU------------UUCCGa--GGACCuc -5'
27224 5' -58.6 NC_005832.1 + 45661 0.67 0.663805
Target:  5'- aGCCUCuCGGAC---AGGC-CCUGGc- -3'
miRNA:   3'- aCGGAG-GCCUGguuUCCGaGGACCuc -5'
27224 5' -58.6 NC_005832.1 + 3021 0.67 0.663805
Target:  5'- -aCCUCCGGuCCAcaAAGGC-UgUGGGGg -3'
miRNA:   3'- acGGAGGCCuGGU--UUCCGaGgACCUC- -5'
27224 5' -58.6 NC_005832.1 + 27120 0.67 0.653467
Target:  5'- gGCCUCCGGG--AAAGG-UCgaGGAGg -3'
miRNA:   3'- aCGGAGGCCUggUUUCCgAGgaCCUC- -5'
27224 5' -58.6 NC_005832.1 + 85912 0.67 0.653467
Target:  5'- -aCCUUuuUGGGCUucgcAGGCUCCUGGAc -3'
miRNA:   3'- acGGAG--GCCUGGuu--UCCGAGGACCUc -5'
27224 5' -58.6 NC_005832.1 + 41092 0.67 0.643111
Target:  5'- cGCUUCUGGccuuAUCAGGGGCagCgCUGGAGc -3'
miRNA:   3'- aCGGAGGCC----UGGUUUCCGa-G-GACCUC- -5'
27224 5' -58.6 NC_005832.1 + 1532 0.67 0.643111
Target:  5'- aGCCUCacuGCCGAuGGCcugagCCUGGAGu -3'
miRNA:   3'- aCGGAGgccUGGUUuCCGa----GGACCUC- -5'
27224 5' -58.6 NC_005832.1 + 10231 0.67 0.62238
Target:  5'- cGcCCUCCaGGACCu--GGCUauggCCUGGGc -3'
miRNA:   3'- aC-GGAGG-CCUGGuuuCCGA----GGACCUc -5'
27224 5' -58.6 NC_005832.1 + 87510 0.68 0.590331
Target:  5'- cGuCCUCCaGGcuggcggccauguACCAcgacGGGCUCCUGGAc -3'
miRNA:   3'- aC-GGAGG-CC-------------UGGUu---UCCGAGGACCUc -5'
27224 5' -58.6 NC_005832.1 + 90921 0.68 0.577993
Target:  5'- aGCCUCaucucggccgagggCGGGCCccucaGGAGGCUCCUuacGAGg -3'
miRNA:   3'- aCGGAG--------------GCCUGG-----UUUCCGAGGAc--CUC- -5'
27224 5' -58.6 NC_005832.1 + 35146 0.68 0.560615
Target:  5'- cUGCCUUCGGA-CAGGGGCccUCCgacgUGGAa -3'
miRNA:   3'- -ACGGAGGCCUgGUUUCCG--AGG----ACCUc -5'
27224 5' -58.6 NC_005832.1 + 43794 0.68 0.559597
Target:  5'- cUGCUUCCccauguuGGACUGGuAGGCguUCCUGGGGc -3'
miRNA:   3'- -ACGGAGG-------CCUGGUU-UCCG--AGGACCUC- -5'
27224 5' -58.6 NC_005832.1 + 93591 0.68 0.550459
Target:  5'- cGCCUCCcgugcuagcgGGAgCGAucaugcucaGGGCUCCggcgUGGAGg -3'
miRNA:   3'- aCGGAGG----------CCUgGUU---------UCCGAGG----ACCUC- -5'
27224 5' -58.6 NC_005832.1 + 15178 0.68 0.550459
Target:  5'- cGCCUgCCuGGCCGGAGGagacaacgCCUGGAu -3'
miRNA:   3'- aCGGA-GGcCUGGUUUCCga------GGACCUc -5'
27224 5' -58.6 NC_005832.1 + 9026 0.69 0.540361
Target:  5'- gGCCUCCuugcuggucaGG-UCAGAGGaCUCgUGGAGg -3'
miRNA:   3'- aCGGAGG----------CCuGGUUUCC-GAGgACCUC- -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.