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
27614 3' -53.6 NC_005882.1 + 31543 0.66 0.748232
Target:  5'- cCAGUUGuCGaUCgACGUgGCCG-CGACGu -3'
miRNA:   3'- -GUCAGC-GCaAG-UGCAaCGGCaGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 19613 0.66 0.726635
Target:  5'- --cUUGCGcUCACGcgccUGCgCGUCGGCGa -3'
miRNA:   3'- gucAGCGCaAGUGCa---ACG-GCAGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 21560 0.66 0.726635
Target:  5'- aGGUUguaGCGgcCGCGcaagUGCgCGUCGACGa -3'
miRNA:   3'- gUCAG---CGCaaGUGCa---ACG-GCAGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 17946 0.66 0.726635
Target:  5'- aGGUCGCG---ACGUUccGCaCGUCGACc -3'
miRNA:   3'- gUCAGCGCaagUGCAA--CG-GCAGCUGc -5'
27614 3' -53.6 NC_005882.1 + 381 0.66 0.726635
Target:  5'- gGGcUCGCGaacaggUCGCGUUGgCGagCGGCGa -3'
miRNA:   3'- gUC-AGCGCa-----AGUGCAACgGCa-GCUGC- -5'
27614 3' -53.6 NC_005882.1 + 18889 0.66 0.71568
Target:  5'- --uUCGCGUUCAUGgcGCCcaucaucgggCGACGa -3'
miRNA:   3'- gucAGCGCAAGUGCaaCGGca--------GCUGC- -5'
27614 3' -53.6 NC_005882.1 + 20469 0.66 0.704638
Target:  5'- uCGGUCGCGcugaguugcUUCuuGUUGCCccCGGCGu -3'
miRNA:   3'- -GUCAGCGC---------AAGugCAACGGcaGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 12663 0.66 0.693522
Target:  5'- gCAGaCgGCGcgCGCGaUGCCGUCGAa- -3'
miRNA:   3'- -GUCaG-CGCaaGUGCaACGGCAGCUgc -5'
27614 3' -53.6 NC_005882.1 + 19985 0.67 0.682343
Target:  5'- ---cCGCGUUCGCGgccGCCGcguaaUCGACc -3'
miRNA:   3'- gucaGCGCAAGUGCaa-CGGC-----AGCUGc -5'
27614 3' -53.6 NC_005882.1 + 14195 0.67 0.659844
Target:  5'- gCAGgcacgCGCGgaaGCGgccgccgcgGCCGUCGACa -3'
miRNA:   3'- -GUCa----GCGCaagUGCaa-------CGGCAGCUGc -5'
27614 3' -53.6 NC_005882.1 + 27629 0.67 0.648548
Target:  5'- gCGGcCGCGcgCGCGgcGaCCGcCGACGa -3'
miRNA:   3'- -GUCaGCGCaaGUGCaaC-GGCaGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 34354 0.67 0.637236
Target:  5'- gAG-CGUGUUCgACGUagUGCCGUUGAa- -3'
miRNA:   3'- gUCaGCGCAAG-UGCA--ACGGCAGCUgc -5'
27614 3' -53.6 NC_005882.1 + 13082 0.68 0.625919
Target:  5'- -uGUCGCGgcUGCGgcggcUGgCGUCGACGu -3'
miRNA:   3'- guCAGCGCaaGUGCa----ACgGCAGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 31606 0.68 0.587547
Target:  5'- -cGUCGCGgcCACGUcgaucgacaacugGCCGgCGACGa -3'
miRNA:   3'- guCAGCGCaaGUGCAa------------CGGCaGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 12968 0.69 0.55849
Target:  5'- uGGUCGCGggCAcaccauCGgcGCCGgCGGCGg -3'
miRNA:   3'- gUCAGCGCaaGU------GCaaCGGCaGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 30834 0.69 0.525493
Target:  5'- gGGUCauGCGgcCAUGUUGCCGcgCGACc -3'
miRNA:   3'- gUCAG--CGCaaGUGCAACGGCa-GCUGc -5'
27614 3' -53.6 NC_005882.1 + 35702 0.7 0.503909
Target:  5'- uGGUCGCGa--ACGUUGCCcuaGACGa -3'
miRNA:   3'- gUCAGCGCaagUGCAACGGcagCUGC- -5'
27614 3' -53.6 NC_005882.1 + 27571 0.7 0.493261
Target:  5'- gCGGUCGcCGcgCGCGcgGCCGcCGGCa -3'
miRNA:   3'- -GUCAGC-GCaaGUGCaaCGGCaGCUGc -5'
27614 3' -53.6 NC_005882.1 + 23083 0.71 0.451766
Target:  5'- cCGGcUGCGUUCACGgcGCCGaUGAUGu -3'
miRNA:   3'- -GUCaGCGCAAGUGCaaCGGCaGCUGC- -5'
27614 3' -53.6 NC_005882.1 + 4905 0.74 0.299721
Target:  5'- aGGUCGUGUUC-CG-UGCCG-CGGCGc -3'
miRNA:   3'- gUCAGCGCAAGuGCaACGGCaGCUGC- -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.