miRNA display CGI


Results 1 - 20 of 42 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
27134 3' -55.2 NC_005832.1 + 43552 0.66 0.880775
Target:  5'- -gUGUGCuCUCUUGGGG--ACGGaGAGUa -3'
miRNA:   3'- ggACGCG-GAGAACUCCguUGUC-CUCG- -5'
27134 3' -55.2 NC_005832.1 + 84109 0.67 0.806521
Target:  5'- gUCUGUucuuGCCgggagaUGAGGCucucacGACGGGAGCg -3'
miRNA:   3'- -GGACG----CGGaga---ACUCCG------UUGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 785 0.67 0.824416
Target:  5'- aCUUGgGUCUUUuuuaUGcGGGCGcACAGGGGCu -3'
miRNA:   3'- -GGACgCGGAGA----AC-UCCGU-UGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 12315 0.67 0.841567
Target:  5'- aCUUGCGCUugcacuUCUcaaAGGCcuCGGGAGCc -3'
miRNA:   3'- -GGACGCGG------AGAac-UCCGuuGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 27984 0.67 0.841567
Target:  5'- aUCUGCGCUcg--GAGGCuuCAcgguguccGGAGCa -3'
miRNA:   3'- -GGACGCGGagaaCUCCGuuGU--------CCUCG- -5'
27134 3' -55.2 NC_005832.1 + 68035 0.66 0.849842
Target:  5'- gCCUuuGCCUCc-GAGGUggagGAgAGGGGCg -3'
miRNA:   3'- -GGAcgCGGAGaaCUCCG----UUgUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 56784 0.66 0.857908
Target:  5'- gCCUGCGCCUgCU--GGGCGAUguugucuauGAGCu -3'
miRNA:   3'- -GGACGCGGA-GAacUCCGUUGuc-------CUCG- -5'
27134 3' -55.2 NC_005832.1 + 82064 0.66 0.860286
Target:  5'- --cGCGCCUCagauuggcuggaaUUguaaacccagacguaGAGGgAGCGGGAGCc -3'
miRNA:   3'- ggaCGCGGAG-------------AA---------------CUCCgUUGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 4902 0.66 0.865756
Target:  5'- cCCUGCGCCaUCa--GGGUGACuguuAGGAGa -3'
miRNA:   3'- -GGACGCGG-AGaacUCCGUUG----UCCUCg -5'
27134 3' -55.2 NC_005832.1 + 66361 0.68 0.772666
Target:  5'- uCCUGC-CCaggugcagcgggacCUUGAGGgGAUGGGGGCu -3'
miRNA:   3'- -GGACGcGGa-------------GAACUCCgUUGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 58376 0.69 0.739096
Target:  5'- uCCUGacCGCCUCUgucacuagGAGGC--UAGGAGa -3'
miRNA:   3'- -GGAC--GCGGAGAa-------CUCCGuuGUCCUCg -5'
27134 3' -55.2 NC_005832.1 + 32905 0.69 0.728986
Target:  5'- aCCacgGCGuCCUCagccgaGAGGCuagacugucAGCGGGAGCg -3'
miRNA:   3'- -GGa--CGC-GGAGaa----CUCCG---------UUGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 72766 0.72 0.551338
Target:  5'- --aGgGCC-CUacAGGCAACAGGGGCg -3'
miRNA:   3'- ggaCgCGGaGAacUCCGUUGUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 51971 0.71 0.572089
Target:  5'- --aGCaaGCCUCUgcaacaGAGGCAGuCAGGAGUc -3'
miRNA:   3'- ggaCG--CGGAGAa-----CUCCGUU-GUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 20343 0.7 0.645741
Target:  5'- aCCaGCGCCcCUUG-GGUGGCGGGuuacAGCa -3'
miRNA:   3'- -GGaCGCGGaGAACuCCGUUGUCC----UCG- -5'
27134 3' -55.2 NC_005832.1 + 91442 0.7 0.649961
Target:  5'- cCCUGUGCCUgUcUGAGGUAgguuuaccccagcuaGgGGGAGUc -3'
miRNA:   3'- -GGACGCGGAgA-ACUCCGU---------------UgUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 66166 0.7 0.656286
Target:  5'- cCCUGaaCCUCUUGGGGUGGgAGGgacAGCu -3'
miRNA:   3'- -GGACgcGGAGAACUCCGUUgUCC---UCG- -5'
27134 3' -55.2 NC_005832.1 + 95055 0.7 0.656286
Target:  5'- aCCUGCGCUUCUcgGAGaCgGACAuGAGCa -3'
miRNA:   3'- -GGACGCGGAGAa-CUCcG-UUGUcCUCG- -5'
27134 3' -55.2 NC_005832.1 + 39456 0.7 0.677304
Target:  5'- gCUGgGCCUCa-GGGGCAGaggggaauCAGGGGUc -3'
miRNA:   3'- gGACgCGGAGaaCUCCGUU--------GUCCUCG- -5'
27134 3' -55.2 NC_005832.1 + 54977 0.7 0.677304
Target:  5'- gCCUGCGCCUCgaacccGAcGGCcAC-GGAGg -3'
miRNA:   3'- -GGACGCGGAGaa----CU-CCGuUGuCCUCg -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.