miRNA display CGI


Results 1 - 20 of 44 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
18175 3' -64.3 NC_004680.1 + 37963 0.66 0.331657
Target:  5'- gGGCGGCCauCGAacgGGCU--CGG-GCGCu -3'
miRNA:   3'- gCCGCCGG--GCUa--CCGAcgGCCaCGCG- -5'
18175 3' -64.3 NC_004680.1 + 32400 0.66 0.331657
Target:  5'- uCGuGCGGCCguCGuc-GCUGCgGGcGCGCa -3'
miRNA:   3'- -GC-CGCCGG--GCuacCGACGgCCaCGCG- -5'
18175 3' -64.3 NC_004680.1 + 28967 0.66 0.331657
Target:  5'- uGGCGGgCUGGacguUGuaguccacguGCggGCCGGUGCGUu -3'
miRNA:   3'- gCCGCCgGGCU----AC----------CGa-CGGCCACGCG- -5'
18175 3' -64.3 NC_004680.1 + 768 0.66 0.329401
Target:  5'- uCGGCGGUUCGAgcgGGCUGgCgucgaacucaggaaGG-GCGUa -3'
miRNA:   3'- -GCCGCCGGGCUa--CCGACgG--------------CCaCGCG- -5'
18175 3' -64.3 NC_004680.1 + 22072 0.66 0.324181
Target:  5'- uGcGUGGUCCGgcGGCguucgaGCCGGUGUu- -3'
miRNA:   3'- gC-CGCCGGGCuaCCGa-----CGGCCACGcg -5'
18175 3' -64.3 NC_004680.1 + 55770 0.66 0.324181
Target:  5'- uGGUGGUCCacUGGCcgggGUCGGaGUGCa -3'
miRNA:   3'- gCCGCCGGGcuACCGa---CGGCCaCGCG- -5'
18175 3' -64.3 NC_004680.1 + 21359 0.66 0.316832
Target:  5'- cCGuCGGCCaCGuAUGGCggcGCCGGcgGUGUa -3'
miRNA:   3'- -GCcGCCGG-GC-UACCGa--CGGCCa-CGCG- -5'
18175 3' -64.3 NC_004680.1 + 42339 0.66 0.309608
Target:  5'- aGGUGGCCCGcacuuUGGgUGuuGG-GCa- -3'
miRNA:   3'- gCCGCCGGGCu----ACCgACggCCaCGcg -5'
18175 3' -64.3 NC_004680.1 + 196 0.66 0.307466
Target:  5'- uGGCGccagaccuGCCgGAUGGUguUGUguggcauccguugaCGGUGCGCu -3'
miRNA:   3'- gCCGC--------CGGgCUACCG--ACG--------------GCCACGCG- -5'
18175 3' -64.3 NC_004680.1 + 32308 0.66 0.302511
Target:  5'- -cGCGGCCaa--GGCUGCUGGUG-GUu -3'
miRNA:   3'- gcCGCCGGgcuaCCGACGGCCACgCG- -5'
18175 3' -64.3 NC_004680.1 + 59097 0.66 0.300407
Target:  5'- aGGCGGUgugggacuuugcguCCuuGGUGGUUGCCccagcGGUGUGUg -3'
miRNA:   3'- gCCGCCG--------------GG--CUACCGACGG-----CCACGCG- -5'
18175 3' -64.3 NC_004680.1 + 35097 0.66 0.29554
Target:  5'- uCGcCGGCCCGA-GGUUgGCuCGGcUGCGUc -3'
miRNA:   3'- -GCcGCCGGGCUaCCGA-CG-GCC-ACGCG- -5'
18175 3' -64.3 NC_004680.1 + 21556 0.67 0.288694
Target:  5'- cCGGUGGCCUcaucUGGCgagcaacGCCGGagccUGCGUu -3'
miRNA:   3'- -GCCGCCGGGcu--ACCGa------CGGCC----ACGCG- -5'
18175 3' -64.3 NC_004680.1 + 53972 0.67 0.288694
Target:  5'- gGGCGGCCaGAUGuGCgGCacacgaggcaGGUGCaGCc -3'
miRNA:   3'- gCCGCCGGgCUAC-CGaCGg---------CCACG-CG- -5'
18175 3' -64.3 NC_004680.1 + 44416 0.67 0.281974
Target:  5'- uGGCGGCUgGcgGGgaGUaCGGcUGCGUc -3'
miRNA:   3'- gCCGCCGGgCuaCCgaCG-GCC-ACGCG- -5'
18175 3' -64.3 NC_004680.1 + 12229 0.67 0.275378
Target:  5'- gCGaGCGGuUCCGGUGGCgugguuccggUGUCGGUGaCGa -3'
miRNA:   3'- -GC-CGCC-GGGCUACCG----------ACGGCCAC-GCg -5'
18175 3' -64.3 NC_004680.1 + 19354 0.67 0.275378
Target:  5'- -uGCGG-UCGGUGGCggugGUggUGGUGCGCa -3'
miRNA:   3'- gcCGCCgGGCUACCGa---CG--GCCACGCG- -5'
18175 3' -64.3 NC_004680.1 + 57536 0.67 0.256331
Target:  5'- gCGGUGGUuuGgGUGGCgGCgCGGUuguaggcgGCGCu -3'
miRNA:   3'- -GCCGCCGggC-UACCGaCG-GCCA--------CGCG- -5'
18175 3' -64.3 NC_004680.1 + 12951 0.67 0.250226
Target:  5'- gCGGCGGCuuGcgGGUcgaUGUCcuUGCGCu -3'
miRNA:   3'- -GCCGCCGggCuaCCG---ACGGccACGCG- -5'
18175 3' -64.3 NC_004680.1 + 8372 0.67 0.250226
Target:  5'- gGGUGGCCCGGgcugGGCUGagcaguacUCGGacgGCaGCu -3'
miRNA:   3'- gCCGCCGGGCUa---CCGAC--------GGCCa--CG-CG- -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.