miRNA display CGI


Results 1 - 20 of 22 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
25936 3' -53.5 NC_005337.1 + 40551 0.66 0.9403
Target:  5'- cGGCGgGUCGcuggaggccgcgUCGAGCcGCcgcgGUUCAUCc -3'
miRNA:   3'- -UUGCgCAGC------------AGCUCGuCGa---CAAGUAG- -5'
25936 3' -53.5 NC_005337.1 + 44462 0.66 0.929532
Target:  5'- uGCGUGUCGUCGcucuucaAGCAGCUcacgcaGUCg -3'
miRNA:   3'- uUGCGCAGCAGC-------UCGUCGAcaag--UAG- -5'
25936 3' -53.5 NC_005337.1 + 38491 0.67 0.92457
Target:  5'- cGCGCGUCGcCGAGCuGGCcGacgaCGUCg -3'
miRNA:   3'- uUGCGCAGCaGCUCG-UCGaCaa--GUAG- -5'
25936 3' -53.5 NC_005337.1 + 27436 0.67 0.918222
Target:  5'- -cCGgGUCGUCGcaguggaAGCAGUUGUUCc-- -3'
miRNA:   3'- uuGCgCAGCAGC-------UCGUCGACAAGuag -5'
25936 3' -53.5 NC_005337.1 + 74727 0.67 0.912798
Target:  5'- uGCGCaUCGaCGAGCGGaUGUUCGUg -3'
miRNA:   3'- uUGCGcAGCaGCUCGUCgACAAGUAg -5'
25936 3' -53.5 NC_005337.1 + 60630 0.67 0.912798
Target:  5'- cACGUGcUCGggccCGAGCAGCgucUCGUCg -3'
miRNA:   3'- uUGCGC-AGCa---GCUCGUCGacaAGUAG- -5'
25936 3' -53.5 NC_005337.1 + 63442 0.67 0.912798
Target:  5'- -cCGCGUUcUCGGGCguguucGGCUGgaugUCGUCg -3'
miRNA:   3'- uuGCGCAGcAGCUCG------UCGACa---AGUAG- -5'
25936 3' -53.5 NC_005337.1 + 45119 0.67 0.912798
Target:  5'- cGACGCGgagcacccagaCGUCGGGCAGCUagUCGc- -3'
miRNA:   3'- -UUGCGCa----------GCAGCUCGUCGAcaAGUag -5'
25936 3' -53.5 NC_005337.1 + 63020 0.67 0.910944
Target:  5'- gAGCGCGUUGUCGAcGCGGUcgaagaccgggcggUaGUUCGUg -3'
miRNA:   3'- -UUGCGCAGCAGCU-CGUCG--------------A-CAAGUAg -5'
25936 3' -53.5 NC_005337.1 + 12481 0.67 0.900005
Target:  5'- -uCGcCGUCGaucugcaugucaUCGAGCAGCUGgucgaugaccUCAUCg -3'
miRNA:   3'- uuGC-GCAGC------------AGCUCGUCGACa---------AGUAG- -5'
25936 3' -53.5 NC_005337.1 + 20710 0.68 0.886213
Target:  5'- --aGCGUCGgacUCGAGCAGCUuGUaCAg- -3'
miRNA:   3'- uugCGCAGC---AGCUCGUCGA-CAaGUag -5'
25936 3' -53.5 NC_005337.1 + 1288 0.68 0.855772
Target:  5'- aGGCGgGUCGgCGGGCAGgUUGUcCAUCc -3'
miRNA:   3'- -UUGCgCAGCaGCUCGUC-GACAaGUAG- -5'
25936 3' -53.5 NC_005337.1 + 64031 0.69 0.839217
Target:  5'- cAGCGCGUggCGUagucgaugaCGAGCGGCgUGUUCAg- -3'
miRNA:   3'- -UUGCGCA--GCA---------GCUCGUCG-ACAAGUag -5'
25936 3' -53.5 NC_005337.1 + 19799 0.7 0.775353
Target:  5'- --gGCGUCGUCGuAG-GGCgGUUCAUCu -3'
miRNA:   3'- uugCGCAGCAGC-UCgUCGaCAAGUAG- -5'
25936 3' -53.5 NC_005337.1 + 86681 0.7 0.775353
Target:  5'- cGCGCGgCGUCGcccacgcccAGCGGCUGcggcUCGUCg -3'
miRNA:   3'- uUGCGCaGCAGC---------UCGUCGACa---AGUAG- -5'
25936 3' -53.5 NC_005337.1 + 45420 0.71 0.755719
Target:  5'- uGCGCGgCGUCGGagcGCAGCUG--CAUCa -3'
miRNA:   3'- uUGCGCaGCAGCU---CGUCGACaaGUAG- -5'
25936 3' -53.5 NC_005337.1 + 12641 0.71 0.755719
Target:  5'- -cCGCGUCGUCGAugccGUGGgUGUUCAg- -3'
miRNA:   3'- uuGCGCAGCAGCU----CGUCgACAAGUag -5'
25936 3' -53.5 NC_005337.1 + 122654 0.71 0.715123
Target:  5'- aGACGCGacUCGUCGAGCAGgUGgcCcgCc -3'
miRNA:   3'- -UUGCGC--AGCAGCUCGUCgACaaGuaG- -5'
25936 3' -53.5 NC_005337.1 + 102838 0.72 0.698506
Target:  5'- cGCGCGUCaugGUCGGGCcGCgcgccaggaagugcaUGUUCGUCa -3'
miRNA:   3'- uUGCGCAG---CAGCUCGuCG---------------ACAAGUAG- -5'
25936 3' -53.5 NC_005337.1 + 11509 0.73 0.620285
Target:  5'- aGACGCGUCGUgcgcCGGGCAGCgcaggGUggccgccaggUCGUCc -3'
miRNA:   3'- -UUGCGCAGCA----GCUCGUCGa----CA----------AGUAG- -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.