miRNA display CGI


Results 1 - 20 of 20 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
13134 3' -58 NC_003401.1 + 93318 0.66 0.819617
Target:  5'- gGACUUUUUCGCCuucgcggaaucaUGCgCGGGGUGUGCCu -3'
miRNA:   3'- -CUGGGAAGGUGG------------ACG-GCUCUGCACGG- -5'
13134 3' -58 NC_003401.1 + 100566 0.66 0.816191
Target:  5'- cGGCCCgcacauagauauaUCCACCgGCauaGAGcCGUGCa -3'
miRNA:   3'- -CUGGGa------------AGGUGGaCGg--CUCuGCACGg -5'
13134 3' -58 NC_003401.1 + 132334 0.66 0.802229
Target:  5'- cGGCCC-UCCGCCccGCCGGccCGgGCCc -3'
miRNA:   3'- -CUGGGaAGGUGGa-CGGCUcuGCaCGG- -5'
13134 3' -58 NC_003401.1 + 107710 0.66 0.800456
Target:  5'- uGACCCgaggguggaggCCACCggggcaacGCuCGGGGCG-GCCg -3'
miRNA:   3'- -CUGGGaa---------GGUGGa-------CG-GCUCUGCaCGG- -5'
13134 3' -58 NC_003401.1 + 28663 0.66 0.793304
Target:  5'- uGACCCccuaCGCCUccccagugcGCacagaGAGACGUGCUg -3'
miRNA:   3'- -CUGGGaag-GUGGA---------CGg----CUCUGCACGG- -5'
13134 3' -58 NC_003401.1 + 6139 0.67 0.765703
Target:  5'- --aCUUUCCcUUUGCCGAGGCGU-CCa -3'
miRNA:   3'- cugGGAAGGuGGACGGCUCUGCAcGG- -5'
13134 3' -58 NC_003401.1 + 21331 0.67 0.765703
Target:  5'- aGCCCUgcgCCGCCaaaaagGCgCGGGAccCGUGCg -3'
miRNA:   3'- cUGGGAa--GGUGGa-----CG-GCUCU--GCACGg -5'
13134 3' -58 NC_003401.1 + 42155 0.67 0.760049
Target:  5'- cACCCgcuggUCgcaaauuacgugacgCGCCUGCCGGcccagcGCGUGCCg -3'
miRNA:   3'- cUGGGa----AG---------------GUGGACGGCUc-----UGCACGG- -5'
13134 3' -58 NC_003401.1 + 125960 0.67 0.756257
Target:  5'- aACCUgggCCACCUcGCCGAGGuuUGCa -3'
miRNA:   3'- cUGGGaa-GGUGGA-CGGCUCUgcACGg -5'
13134 3' -58 NC_003401.1 + 125194 0.67 0.756257
Target:  5'- cGACCCcgccgugacgUUCCACCccugGCaguGGGcguACGUGCCg -3'
miRNA:   3'- -CUGGG----------AAGGUGGa---CGg--CUC---UGCACGG- -5'
13134 3' -58 NC_003401.1 + 66329 0.67 0.756257
Target:  5'- cAUCCUUCCGuuUgUGUgGAG-CGUGCCa -3'
miRNA:   3'- cUGGGAAGGU--GgACGgCUCuGCACGG- -5'
13134 3' -58 NC_003401.1 + 23498 0.67 0.750537
Target:  5'- uGACCCUUCggugaccucggggaGCCgggugcaggGCgGGGGCGUGCUu -3'
miRNA:   3'- -CUGGGAAGg-------------UGGa--------CGgCUCUGCACGG- -5'
13134 3' -58 NC_003401.1 + 132222 0.67 0.727306
Target:  5'- cGCCCggccggcgCCGCC-GCCGGGcCGcgGCCg -3'
miRNA:   3'- cUGGGaa------GGUGGaCGGCUCuGCa-CGG- -5'
13134 3' -58 NC_003401.1 + 11860 0.69 0.647196
Target:  5'- aACCUgaagagUUCGCCggugGCCGAGGCGcUGCa -3'
miRNA:   3'- cUGGGa-----AGGUGGa---CGGCUCUGC-ACGg -5'
13134 3' -58 NC_003401.1 + 93140 0.71 0.536486
Target:  5'- aGACUCUguuuauucguUCCAagaGCCGAGACGUGaCCa -3'
miRNA:   3'- -CUGGGA----------AGGUggaCGGCUCUGCAC-GG- -5'
13134 3' -58 NC_003401.1 + 104069 0.71 0.526676
Target:  5'- aGCCgUUCgGCC-GCCGAGAUGcugGCCu -3'
miRNA:   3'- cUGGgAAGgUGGaCGGCUCUGCa--CGG- -5'
13134 3' -58 NC_003401.1 + 119897 0.71 0.507266
Target:  5'- aACCCUcgcggCCGCC-GCCGAGuCGguUGCCa -3'
miRNA:   3'- cUGGGAa----GGUGGaCGGCUCuGC--ACGG- -5'
13134 3' -58 NC_003401.1 + 49921 0.72 0.460172
Target:  5'- gGGCCCUcaUUCGCCUGCCG-GAUuuaGCCa -3'
miRNA:   3'- -CUGGGA--AGGUGGACGGCuCUGca-CGG- -5'
13134 3' -58 NC_003401.1 + 118865 0.75 0.312731
Target:  5'- cGCCCUccucgccucggUgCACgCUGCCGAG-CGUGCCa -3'
miRNA:   3'- cUGGGA-----------AgGUG-GACGGCUCuGCACGG- -5'
13134 3' -58 NC_003401.1 + 69496 1.12 0.001105
Target:  5'- gGACCCUUCCACCUGCCGAGACGUGCCg -3'
miRNA:   3'- -CUGGGAAGGUGGACGGCUCUGCACGG- -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.