miRNA display CGI


Results 1 - 20 of 58 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
26215 5' -57.2 NC_005342.2 + 38872 0.66 0.607059
Target:  5'- -uCGGCGGCGAcaUUGCgCUUGAcaGCGCa -3'
miRNA:   3'- ccGCCGCCGUUc-AGCGaGGACU--UGCG- -5'
26215 5' -57.2 NC_005342.2 + 27025 0.66 0.607059
Target:  5'- uGGCguagccgccgGGCGuCGGGUUGCaaUCCUGcGCGCc -3'
miRNA:   3'- -CCG----------CCGCcGUUCAGCG--AGGACuUGCG- -5'
26215 5' -57.2 NC_005342.2 + 1357 0.66 0.607059
Target:  5'- aGGCGcucGCGGCAcucGGUUuCUUUcGAGCGCa -3'
miRNA:   3'- -CCGC---CGCCGU---UCAGcGAGGaCUUGCG- -5'
26215 5' -57.2 NC_005342.2 + 18601 0.66 0.603793
Target:  5'- cGGC-GCGGCAGG-CGCgggcggcaacccuuUCCUGuaaAGCGUc -3'
miRNA:   3'- -CCGcCGCCGUUCaGCG--------------AGGAC---UUGCG- -5'
26215 5' -57.2 NC_005342.2 + 25055 0.66 0.59618
Target:  5'- aGCGGCaGCAccgCGCUUCUgcucgucacGAGCGCc -3'
miRNA:   3'- cCGCCGcCGUucaGCGAGGA---------CUUGCG- -5'
26215 5' -57.2 NC_005342.2 + 24538 0.66 0.585332
Target:  5'- cGGcCGGCGGCGGGUaCGUgCCgGGcuaccaguacgGCGUg -3'
miRNA:   3'- -CC-GCCGCCGUUCA-GCGaGGaCU-----------UGCG- -5'
26215 5' -57.2 NC_005342.2 + 11041 0.66 0.585332
Target:  5'- cGGCGGaacuCGGCAccGGcgCGCgUCgUGAGCGg -3'
miRNA:   3'- -CCGCC----GCCGU--UCa-GCG-AGgACUUGCg -5'
26215 5' -57.2 NC_005342.2 + 19723 0.66 0.585332
Target:  5'- uGGUGGCGuGCAAGacggCGC-CgCUGccgucaacGACGCg -3'
miRNA:   3'- -CCGCCGC-CGUUCa---GCGaG-GAC--------UUGCG- -5'
26215 5' -57.2 NC_005342.2 + 8170 0.66 0.585332
Target:  5'- aGCGGCGuCGAGaCGUU-UUGAACGCu -3'
miRNA:   3'- cCGCCGCcGUUCaGCGAgGACUUGCG- -5'
26215 5' -57.2 NC_005342.2 + 3901 0.66 0.574522
Target:  5'- aGCGGCGGCAGGcCGa-CCggcagGuugGCGCc -3'
miRNA:   3'- cCGCCGCCGUUCaGCgaGGa----Cu--UGCG- -5'
26215 5' -57.2 NC_005342.2 + 4551 0.66 0.574522
Target:  5'- uGCGGuCGGCAA-UCGUcuuuUCCaUGAACGg -3'
miRNA:   3'- cCGCC-GCCGUUcAGCG----AGG-ACUUGCg -5'
26215 5' -57.2 NC_005342.2 + 36024 0.66 0.574522
Target:  5'- cGCuGCGuGCAAGgCGCUcgaccgCCUgGAGCGCg -3'
miRNA:   3'- cCGcCGC-CGUUCaGCGA------GGA-CUUGCG- -5'
26215 5' -57.2 NC_005342.2 + 13941 0.66 0.563759
Target:  5'- gGGcCGGCGGCcGGUgCGCgcgagCUGAGUGCc -3'
miRNA:   3'- -CC-GCCGCCGuUCA-GCGag---GACUUGCG- -5'
26215 5' -57.2 NC_005342.2 + 13884 0.66 0.563759
Target:  5'- cGCGGCGGCc-GUCGCgaucguagCCgcagcggccAACGCg -3'
miRNA:   3'- cCGCCGCCGuuCAGCGa-------GGac-------UUGCG- -5'
26215 5' -57.2 NC_005342.2 + 25667 0.66 0.55305
Target:  5'- cGGCcgucgcgaaGGCGGCGAccUGauccgCCUGAACGCc -3'
miRNA:   3'- -CCG---------CCGCCGUUcaGCga---GGACUUGCG- -5'
26215 5' -57.2 NC_005342.2 + 25508 0.67 0.542403
Target:  5'- aGauGCGGcCGAG-CGCgUCCUGGuACGCg -3'
miRNA:   3'- cCgcCGCC-GUUCaGCG-AGGACU-UGCG- -5'
26215 5' -57.2 NC_005342.2 + 22185 0.67 0.531824
Target:  5'- cGGCGGCGGUucGgcggcUGCggCCUGcucGAUGCc -3'
miRNA:   3'- -CCGCCGCCGuuCa----GCGa-GGAC---UUGCG- -5'
26215 5' -57.2 NC_005342.2 + 721 0.67 0.531824
Target:  5'- cGGCGccucguucagcGCGGC-AGUCGCcgCCg--GCGCg -3'
miRNA:   3'- -CCGC-----------CGCCGuUCAGCGa-GGacuUGCG- -5'
26215 5' -57.2 NC_005342.2 + 5958 0.67 0.525512
Target:  5'- cGGCaccuuGCGGCcGGUCGCUuUCUcguagacuuacgagcGAACGCa -3'
miRNA:   3'- -CCGc----CGCCGuUCAGCGA-GGA---------------CUUGCG- -5'
26215 5' -57.2 NC_005342.2 + 15780 0.67 0.52132
Target:  5'- uGCuGCGGCucGUCGCggCgCUGAaggGCGCc -3'
miRNA:   3'- cCGcCGCCGuuCAGCGa-G-GACU---UGCG- -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.