miRNA display CGI


Results 1 - 20 of 31 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
30857 3' -61.9 NC_006552.1 + 61765 0.66 0.4624
Target:  5'- uGCCaGGC-CUguuGC-GGUGGCGGCCu -3'
miRNA:   3'- gCGG-CCGcGAagcCGaCCACCGCUGG- -5'
30857 3' -61.9 NC_006552.1 + 38855 0.68 0.334337
Target:  5'- uGCCGGUGCguguaCGGC--GUGG-GACCa -3'
miRNA:   3'- gCGGCCGCGaa---GCCGacCACCgCUGG- -5'
30857 3' -61.9 NC_006552.1 + 26212 0.68 0.342022
Target:  5'- uGCCGGUcgGCaUgGGCgacaGGUGGCGAa- -3'
miRNA:   3'- gCGGCCG--CGaAgCCGa---CCACCGCUgg -5'
30857 3' -61.9 NC_006552.1 + 54554 0.68 0.342022
Target:  5'- uGCCGGCGCaa-GGCc--UGGUGAUCg -3'
miRNA:   3'- gCGGCCGCGaagCCGaccACCGCUGG- -5'
30857 3' -61.9 NC_006552.1 + 53593 0.68 0.342022
Target:  5'- gCGCCGGCcaguucgguGCcgcCGGCUgaGGUGGaGGCCu -3'
miRNA:   3'- -GCGGCCG---------CGaa-GCCGA--CCACCgCUGG- -5'
30857 3' -61.9 NC_006552.1 + 61373 0.68 0.349834
Target:  5'- aGCCGGgccaUGUUUUGGCgcgccGGcGGCGGCUa -3'
miRNA:   3'- gCGGCC----GCGAAGCCGa----CCaCCGCUGG- -5'
30857 3' -61.9 NC_006552.1 + 52946 0.67 0.362595
Target:  5'- gCGCCGGCGCccgccgccggugCGGCauccgGGUGcGCGuuCa -3'
miRNA:   3'- -GCGGCCGCGaa----------GCCGa----CCAC-CGCugG- -5'
30857 3' -61.9 NC_006552.1 + 26754 0.67 0.365835
Target:  5'- aGuuGGCGgaaCGGCUGGUccGUGACCu -3'
miRNA:   3'- gCggCCGCgaaGCCGACCAc-CGCUGG- -5'
30857 3' -61.9 NC_006552.1 + 7716 0.67 0.365835
Target:  5'- aGCCGGCGCauugcgcugCGGUUGGUcuuugucaGGCG-Ca -3'
miRNA:   3'- gCGGCCGCGaa-------GCCGACCA--------CCGCuGg -5'
30857 3' -61.9 NC_006552.1 + 32706 0.68 0.319348
Target:  5'- gGCCGGCGCgg-GGCcGGUGGagcGCUc -3'
miRNA:   3'- gCGGCCGCGaagCCGaCCACCgc-UGG- -5'
30857 3' -61.9 NC_006552.1 + 2733 0.68 0.318612
Target:  5'- gCGCCaucgcGCGCUUUgccccguuucaGGCUGGUucgagugGGUGGCCg -3'
miRNA:   3'- -GCGGc----CGCGAAG-----------CCGACCA-------CCGCUGG- -5'
30857 3' -61.9 NC_006552.1 + 12155 0.69 0.2909
Target:  5'- cCGCCcucgauGGCa--UCGGCcagguuguucaUGGUGGCGGCCa -3'
miRNA:   3'- -GCGG------CCGcgaAGCCG-----------ACCACCGCUGG- -5'
30857 3' -61.9 NC_006552.1 + 36403 0.74 0.137404
Target:  5'- uCGCCGGCGCUcggagacgccUUGGCUuG-GGCGGCa -3'
miRNA:   3'- -GCGGCCGCGA----------AGCCGAcCaCCGCUGg -5'
30857 3' -61.9 NC_006552.1 + 35393 0.72 0.182431
Target:  5'- gGCCGGCGgUUCGGUcuUGGcuuuguugaUGGCaGCCu -3'
miRNA:   3'- gCGGCCGCgAAGCCG--ACC---------ACCGcUGG- -5'
30857 3' -61.9 NC_006552.1 + 26110 0.71 0.228531
Target:  5'- aGCCGuaGCGCUcaUCGuGCaGGUGGUaGGCCa -3'
miRNA:   3'- gCGGC--CGCGA--AGC-CGaCCACCG-CUGG- -5'
30857 3' -61.9 NC_006552.1 + 15213 0.7 0.252009
Target:  5'- uGCCGGuCGCcuugCGGUUGGUGuccacGCuGACCu -3'
miRNA:   3'- gCGGCC-GCGaa--GCCGACCAC-----CG-CUGG- -5'
30857 3' -61.9 NC_006552.1 + 61193 0.7 0.25818
Target:  5'- aGCCuGCGCcgauaUCGGCUGcuggGGCGACa -3'
miRNA:   3'- gCGGcCGCGa----AGCCGACca--CCGCUGg -5'
30857 3' -61.9 NC_006552.1 + 8241 0.7 0.260056
Target:  5'- uGUCGGCGCgggccaugguguccaGGCUacggucGGUGGCGGCg -3'
miRNA:   3'- gCGGCCGCGaag------------CCGA------CCACCGCUGg -5'
30857 3' -61.9 NC_006552.1 + 11057 0.7 0.264475
Target:  5'- cCGCCGG-GCUUCagcaGGCUGuaGGCGugCu -3'
miRNA:   3'- -GCGGCCgCGAAG----CCGACcaCCGCugG- -5'
30857 3' -61.9 NC_006552.1 + 59401 0.69 0.270893
Target:  5'- gGCgCGGCaGCgUCaGGC-GGUGGCGGCg -3'
miRNA:   3'- gCG-GCCG-CGaAG-CCGaCCACCGCUGg -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.