miRNA display CGI


Results 1 - 20 of 23 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
12147 5' -56.8 NC_003309.1 + 49837 0.66 0.647736
Target:  5'- gCGCgCGGCucGC-UCGCCaGAAUCAGg- -3'
miRNA:   3'- -GCGgGCCG--CGuAGCGGcUUUAGUCag -5'
12147 5' -56.8 NC_003309.1 + 48221 0.66 0.647736
Target:  5'- cCGUCCGaGCGC--CGCUGAcgcgcGAUCAGcUCg -3'
miRNA:   3'- -GCGGGC-CGCGuaGCGGCU-----UUAGUC-AG- -5'
12147 5' -56.8 NC_003309.1 + 47606 0.66 0.62589
Target:  5'- uGCCCGGU-CGUCGCCGcg--CcGUCc -3'
miRNA:   3'- gCGGGCCGcGUAGCGGCuuuaGuCAG- -5'
12147 5' -56.8 NC_003309.1 + 8507 0.66 0.614971
Target:  5'- cCGCUCacaCGCAcgcuguacgUCGCCGAGAUCAGcCc -3'
miRNA:   3'- -GCGGGcc-GCGU---------AGCGGCUUUAGUCaG- -5'
12147 5' -56.8 NC_003309.1 + 11301 0.66 0.604066
Target:  5'- aCGgaCGGCGCAUCGCCaaacGUCGG-Ca -3'
miRNA:   3'- -GCggGCCGCGUAGCGGcuu-UAGUCaG- -5'
12147 5' -56.8 NC_003309.1 + 22212 0.66 0.593185
Target:  5'- aGaCCCGGCaGCAcUCGaCCGccagCAGUCa -3'
miRNA:   3'- gC-GGGCCG-CGU-AGC-GGCuuuaGUCAG- -5'
12147 5' -56.8 NC_003309.1 + 19640 0.66 0.593185
Target:  5'- aCGCCCGGCcccuUCGCCGGGAaccaCGGcCc -3'
miRNA:   3'- -GCGGGCCGcgu-AGCGGCUUUa---GUCaG- -5'
12147 5' -56.8 NC_003309.1 + 31701 0.67 0.56077
Target:  5'- gGCUCGGCGCGaCGaUCGuGAAUCAGg- -3'
miRNA:   3'- gCGGGCCGCGUaGC-GGC-UUUAGUCag -5'
12147 5' -56.8 NC_003309.1 + 15386 0.67 0.550067
Target:  5'- uCGCCaaGCGCAacgcacagCGCCGAAAUCGuUCc -3'
miRNA:   3'- -GCGGgcCGCGUa-------GCGGCUUUAGUcAG- -5'
12147 5' -56.8 NC_003309.1 + 16205 0.67 0.550067
Target:  5'- cCGgCCGGCGCGaacucgcaccagUCGUCGAcgccgaucGAUCcGUCg -3'
miRNA:   3'- -GCgGGCCGCGU------------AGCGGCU--------UUAGuCAG- -5'
12147 5' -56.8 NC_003309.1 + 26055 0.68 0.51837
Target:  5'- --aUUGGCGuCAUCGUCGGAG-CAGUCa -3'
miRNA:   3'- gcgGGCCGC-GUAGCGGCUUUaGUCAG- -5'
12147 5' -56.8 NC_003309.1 + 10834 0.68 0.507963
Target:  5'- aCGCUCGGCucgcGCGagGCCGuGAUCcGUCu -3'
miRNA:   3'- -GCGGGCCG----CGUagCGGCuUUAGuCAG- -5'
12147 5' -56.8 NC_003309.1 + 53263 0.69 0.447581
Target:  5'- cCGCUCGcGCGCcgucuUCGCCGcguGA-CAGUCa -3'
miRNA:   3'- -GCGGGC-CGCGu----AGCGGCu--UUaGUCAG- -5'
12147 5' -56.8 NC_003309.1 + 10944 0.69 0.447581
Target:  5'- aGCgCCGucuGCGcCGUCGCCGcgcuuUCAGUCg -3'
miRNA:   3'- gCG-GGC---CGC-GUAGCGGCuuu--AGUCAG- -5'
12147 5' -56.8 NC_003309.1 + 47951 0.69 0.418917
Target:  5'- gCGCUCGGCGaagcugCGaCCGAuaguUCGGUCg -3'
miRNA:   3'- -GCGGGCCGCgua---GC-GGCUuu--AGUCAG- -5'
12147 5' -56.8 NC_003309.1 + 19787 0.7 0.381605
Target:  5'- uCGCCCGcGUaaaucgucGCGUCGCCGGccaucggcgggguGAUCAgGUCg -3'
miRNA:   3'- -GCGGGC-CG--------CGUAGCGGCU-------------UUAGU-CAG- -5'
12147 5' -56.8 NC_003309.1 + 40487 0.7 0.379842
Target:  5'- gGCCgCGGCGagggagccagaggaCGCCGGAGUUGGUCg -3'
miRNA:   3'- gCGG-GCCGCgua-----------GCGGCUUUAGUCAG- -5'
12147 5' -56.8 NC_003309.1 + 11976 0.7 0.373716
Target:  5'- aGCCgCGGCGCG-CGCCGc-GUCGG-Cg -3'
miRNA:   3'- gCGG-GCCGCGUaGCGGCuuUAGUCaG- -5'
12147 5' -56.8 NC_003309.1 + 46745 0.71 0.34575
Target:  5'- uCGCCa-GCGCG-CGCCGGAacgggcucuuugauGUCGGUCg -3'
miRNA:   3'- -GCGGgcCGCGUaGCGGCUU--------------UAGUCAG- -5'
12147 5' -56.8 NC_003309.1 + 33321 0.72 0.301064
Target:  5'- uGCuUCGGgGCGUCGCCGGugacgAAUgGGUCa -3'
miRNA:   3'- gCG-GGCCgCGUAGCGGCU-----UUAgUCAG- -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.