miRNA display CGI


Results 1 - 20 of 25 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
18210 3' -63.5 NC_004680.1 + 1246 0.66 0.366161
Target:  5'- -aCACgUCgaCGGCUgGGCAGCCGgggCAGGg -3'
miRNA:   3'- ggGUG-AGg-GCCGA-CCGUCGGCg--GUCC- -5'
18210 3' -63.5 NC_004680.1 + 12357 0.66 0.366161
Target:  5'- uCCCGCgUCUgGuGCUGGCGcggguccaCUGCCGGGu -3'
miRNA:   3'- -GGGUG-AGGgC-CGACCGUc-------GGCGGUCC- -5'
18210 3' -63.5 NC_004680.1 + 54896 0.66 0.350197
Target:  5'- aCUACUCCUGGCUGuuGGa-GCgGGGa -3'
miRNA:   3'- gGGUGAGGGCCGACcgUCggCGgUCC- -5'
18210 3' -63.5 NC_004680.1 + 28510 0.66 0.342403
Target:  5'- aCCACUaCCGcGCcuUGGgaaUAGCCaGCCAGGg -3'
miRNA:   3'- gGGUGAgGGC-CG--ACC---GUCGG-CGGUCC- -5'
18210 3' -63.5 NC_004680.1 + 19240 0.66 0.34163
Target:  5'- --gGCUaUCCGGCgacguguuguuucUGGUGGCCGCCAGc -3'
miRNA:   3'- gggUGA-GGGCCG-------------ACCGUCGGCGGUCc -5'
18210 3' -63.5 NC_004680.1 + 18955 0.66 0.334734
Target:  5'- cCCCgaacuuguuggGCUUuuGGgUGGCacGGCCgcGCCGGGg -3'
miRNA:   3'- -GGG-----------UGAGggCCgACCG--UCGG--CGGUCC- -5'
18210 3' -63.5 NC_004680.1 + 42624 0.66 0.334734
Target:  5'- cCCCAUcccugaacaugUCCUGGCccaGGCGGCcCGCCu-- -3'
miRNA:   3'- -GGGUG-----------AGGGCCGa--CCGUCG-GCGGucc -5'
18210 3' -63.5 NC_004680.1 + 21933 0.66 0.327192
Target:  5'- cCUCACUCCCgaggugGGCaUGGCgccguggcccacAGUCGCguGGg -3'
miRNA:   3'- -GGGUGAGGG------CCG-ACCG------------UCGGCGguCC- -5'
18210 3' -63.5 NC_004680.1 + 21304 0.67 0.305326
Target:  5'- aCCCAauaUCcaCCGGCUccGGCGGCaccgGCCAGu -3'
miRNA:   3'- -GGGUg--AG--GGCCGA--CCGUCGg---CGGUCc -5'
18210 3' -63.5 NC_004680.1 + 19802 0.67 0.297594
Target:  5'- aCCCGCUCCaccaGG-UGGCguaccguGGCCGCCc-- -3'
miRNA:   3'- -GGGUGAGGg---CCgACCG-------UCGGCGGucc -5'
18210 3' -63.5 NC_004680.1 + 25921 0.67 0.291381
Target:  5'- cUCCGugguCUCgCCGuGgUGGCGGCCGCCGc- -3'
miRNA:   3'- -GGGU----GAG-GGC-CgACCGUCGGCGGUcc -5'
18210 3' -63.5 NC_004680.1 + 19063 0.68 0.27794
Target:  5'- gCUugUCCCGGUgGGCGGCaCGCa--- -3'
miRNA:   3'- gGGugAGGGCCGaCCGUCG-GCGgucc -5'
18210 3' -63.5 NC_004680.1 + 25982 0.68 0.271407
Target:  5'- gCCCGCUCCaguuCGGCcaGGauaAGCUccuGCCGGGa -3'
miRNA:   3'- -GGGUGAGG----GCCGa-CCg--UCGG---CGGUCC- -5'
18210 3' -63.5 NC_004680.1 + 42738 0.68 0.246506
Target:  5'- cCCCGgUCgUGGCUGGgA-CCGCCGGc -3'
miRNA:   3'- -GGGUgAGgGCCGACCgUcGGCGGUCc -5'
18210 3' -63.5 NC_004680.1 + 37154 0.69 0.223528
Target:  5'- gCCAa-CCUGGC-GGCuGCCaGCCGGGa -3'
miRNA:   3'- gGGUgaGGGCCGaCCGuCGG-CGGUCC- -5'
18210 3' -63.5 NC_004680.1 + 39986 0.69 0.214859
Target:  5'- uUCCGCUCUggcgcggaucuaCGGCUGacGCAGCgggccgucacccccaCGCCAGGa -3'
miRNA:   3'- -GGGUGAGG------------GCCGAC--CGUCG---------------GCGGUCC- -5'
18210 3' -63.5 NC_004680.1 + 13248 0.69 0.212737
Target:  5'- aCCAUUUCUGGUgcGGCGGuccggucggggaCCGCCAGGc -3'
miRNA:   3'- gGGUGAGGGCCGa-CCGUC------------GGCGGUCC- -5'
18210 3' -63.5 NC_004680.1 + 8804 0.69 0.207511
Target:  5'- aCCCG-UCCCGGCgcGGUcaaggGGCCGCCGu- -3'
miRNA:   3'- -GGGUgAGGGCCGa-CCG-----UCGGCGGUcc -5'
18210 3' -63.5 NC_004680.1 + 1335 0.69 0.207511
Target:  5'- cCCUGC-CCCGGCUGccCAGCCGUCGa- -3'
miRNA:   3'- -GGGUGaGGGCCGACc-GUCGGCGGUcc -5'
18210 3' -63.5 NC_004680.1 + 47294 0.7 0.202396
Target:  5'- gCCACUguugaUCGGCUGGCAGU--CCAGGu -3'
miRNA:   3'- gGGUGAg----GGCCGACCGUCGgcGGUCC- -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.