miRNA display CGI


Results 1 - 20 of 29 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
18407 3' -60.9 NC_004681.1 + 367 0.68 0.355413
Target:  5'- --uCCGcGAGGACGaGCCCGCggucaagacCUGGGGCa -3'
miRNA:   3'- uucGGC-CUUCUGC-CGGGCG---------GACUCUG- -5'
18407 3' -60.9 NC_004681.1 + 1278 0.7 0.287878
Target:  5'- -uGUCGGAGGGC-GCCCaggaaGUCUGGGACg -3'
miRNA:   3'- uuCGGCCUUCUGcCGGG-----CGGACUCUG- -5'
18407 3' -60.9 NC_004681.1 + 2923 0.68 0.371859
Target:  5'- uGGCUGGgcGACGGCaCCGCCa----- -3'
miRNA:   3'- uUCGGCCuuCUGCCG-GGCGGacucug -5'
18407 3' -60.9 NC_004681.1 + 2977 0.68 0.377736
Target:  5'- cGAGCgGGAGGGgGGCUucgucacggucgagCGCCUcgGGGACg -3'
miRNA:   3'- -UUCGgCCUUCUgCCGG--------------GCGGA--CUCUG- -5'
18407 3' -60.9 NC_004681.1 + 5441 0.66 0.471046
Target:  5'- --aCCGGGAGGCGuGCCagCGCCUGuGcGCg -3'
miRNA:   3'- uucGGCCUUCUGC-CGG--GCGGACuC-UG- -5'
18407 3' -60.9 NC_004681.1 + 5706 0.67 0.388815
Target:  5'- cGGGCUGGAGcGCGGCCUGUCgcucaugGAGuCg -3'
miRNA:   3'- -UUCGGCCUUcUGCCGGGCGGa------CUCuG- -5'
18407 3' -60.9 NC_004681.1 + 7923 0.68 0.379427
Target:  5'- gGAGCCGGAAGAaguggUGGUcgaagagcccucuCUGUUUGAGACu -3'
miRNA:   3'- -UUCGGCCUUCU-----GCCG-------------GGCGGACUCUG- -5'
18407 3' -60.9 NC_004681.1 + 8742 0.66 0.461465
Target:  5'- cGGGCCGcGAGGAaaucaGGUCCGC--GAGGCu -3'
miRNA:   3'- -UUCGGC-CUUCUg----CCGGGCGgaCUCUG- -5'
18407 3' -60.9 NC_004681.1 + 13586 0.67 0.406271
Target:  5'- aAGGCCGc-GGGCGGCCaCGCCaauGACg -3'
miRNA:   3'- -UUCGGCcuUCUGCCGG-GCGGacuCUG- -5'
18407 3' -60.9 NC_004681.1 + 18148 0.69 0.331719
Target:  5'- --aUCGGAAGaccGCGGCgCUGCCgUGAGGCg -3'
miRNA:   3'- uucGGCCUUC---UGCCG-GGCGG-ACUCUG- -5'
18407 3' -60.9 NC_004681.1 + 18288 0.67 0.415182
Target:  5'- -cGCCGGGAGGCGcuccaggaCCGCCaggGAGAg -3'
miRNA:   3'- uuCGGCCUUCUGCcg------GGCGGa--CUCUg -5'
18407 3' -60.9 NC_004681.1 + 19632 0.67 0.415182
Target:  5'- -cGgCGaGGGugGGCaaGCCUGGGACg -3'
miRNA:   3'- uuCgGCcUUCugCCGggCGGACUCUG- -5'
18407 3' -60.9 NC_004681.1 + 20384 1.06 0.000629
Target:  5'- gAAGCCGGAAGACGGCCCGCCUGAGACc -3'
miRNA:   3'- -UUCGGCCUUCUGCCGGGCGGACUCUG- -5'
18407 3' -60.9 NC_004681.1 + 20529 0.66 0.490505
Target:  5'- -uGCUGuc-GAUGGUCgCGCCUGAGAUg -3'
miRNA:   3'- uuCGGCcuuCUGCCGG-GCGGACUCUG- -5'
18407 3' -60.9 NC_004681.1 + 23424 0.68 0.371024
Target:  5'- -uGCCGGAAGAggUGGCCCagaagcgaauucgGCCcgaUGAGAa -3'
miRNA:   3'- uuCGGCCUUCU--GCCGGG-------------CGG---ACUCUg -5'
18407 3' -60.9 NC_004681.1 + 33005 0.66 0.490505
Target:  5'- --cCCGGuAG-CGGCCUGCCgaccucGGGACa -3'
miRNA:   3'- uucGGCCuUCuGCCGGGCGGa-----CUCUG- -5'
18407 3' -60.9 NC_004681.1 + 34170 0.74 0.145193
Target:  5'- aAAGCC-GAAGGC--CCCGCCUGAGACu -3'
miRNA:   3'- -UUCGGcCUUCUGccGGGCGGACUCUG- -5'
18407 3' -60.9 NC_004681.1 + 35808 0.66 0.451987
Target:  5'- gGGGCgCGGccAGGACGaUCCGUCUGAGAg -3'
miRNA:   3'- -UUCG-GCC--UUCUGCcGGGCGGACUCUg -5'
18407 3' -60.9 NC_004681.1 + 39620 0.66 0.500373
Target:  5'- -cGCCGGGAuuGcCaGCCCGCUUGGGcCa -3'
miRNA:   3'- uuCGGCCUU--CuGcCGGGCGGACUCuG- -5'
18407 3' -60.9 NC_004681.1 + 39986 0.66 0.490505
Target:  5'- -cGCUGGggGucuCcGCCCGCCUGGu-- -3'
miRNA:   3'- uuCGGCCuuCu--GcCGGGCGGACUcug -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.