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
1430 3' -50 NC_001335.1 + 314 0.66 0.953042
Target:  5'- -gGCcuUGAAGGGC-CGGUCAuAGaGAUCu -3'
miRNA:   3'- gaUGu-ACUUCCUGaGCCAGU-UC-CUGG- -5'
1430 3' -50 NC_001335.1 + 37274 0.66 0.943575
Target:  5'- aUGCAgcuccccGAGGACgagCGGUaucccaAGGGGCCu -3'
miRNA:   3'- gAUGUac-----UUCCUGa--GCCAg-----UUCCUGG- -5'
1430 3' -50 NC_001335.1 + 4711 0.66 0.943575
Target:  5'- gCUGCA-GAccGGGGCUUGGUaugGAGGucgcACCg -3'
miRNA:   3'- -GAUGUaCU--UCCUGAGCCAg--UUCC----UGG- -5'
1430 3' -50 NC_001335.1 + 27996 0.66 0.943575
Target:  5'- gUACuucaggGAAGGuguGCUCGGUCAAcGGCg -3'
miRNA:   3'- gAUGua----CUUCC---UGAGCCAGUUcCUGg -5'
1430 3' -50 NC_001335.1 + 52293 0.67 0.927185
Target:  5'- ---------cGAC-CGGUCAAGGACCg -3'
miRNA:   3'- gauguacuucCUGaGCCAGUUCCUGG- -5'
1430 3' -50 NC_001335.1 + 12319 0.67 0.927185
Target:  5'- uUGCAgugGAAGGcguACUCGGccUCGAcucGGACUg -3'
miRNA:   3'- gAUGUa--CUUCC---UGAGCC--AGUU---CCUGG- -5'
1430 3' -50 NC_001335.1 + 44773 0.67 0.927185
Target:  5'- gCUGagaGUGAGuGGuAUUCGGcUAGGGGCCg -3'
miRNA:   3'- -GAUg--UACUU-CC-UGAGCCaGUUCCUGG- -5'
1430 3' -50 NC_001335.1 + 8019 0.67 0.92113
Target:  5'- -gACGUGAAGGAgUUCGaggcguacGUCGaccaguGGGGCCg -3'
miRNA:   3'- gaUGUACUUCCU-GAGC--------CAGU------UCCUGG- -5'
1430 3' -50 NC_001335.1 + 31618 0.67 0.907455
Target:  5'- -gACAUGGcacgcagAGcGACUgCGGugacccUCGAGGACCg -3'
miRNA:   3'- gaUGUACU-------UC-CUGA-GCC------AGUUCCUGG- -5'
1430 3' -50 NC_001335.1 + 9863 0.68 0.893975
Target:  5'- -gGCgGUGccguGGGGCUCGGggagccuGGGACCg -3'
miRNA:   3'- gaUG-UACu---UCCUGAGCCagu----UCCUGG- -5'
1430 3' -50 NC_001335.1 + 15794 0.68 0.885701
Target:  5'- -gGCGUaGAAgucgcccGGAuCUCGGUCAAGGucaGCCc -3'
miRNA:   3'- gaUGUA-CUU-------CCU-GAGCCAGUUCC---UGG- -5'
1430 3' -50 NC_001335.1 + 24601 0.68 0.867324
Target:  5'- -cACAUGAAGGAC-CGuacgaagaugaaCAAGGGCCc -3'
miRNA:   3'- gaUGUACUUCCUGaGCca----------GUUCCUGG- -5'
1430 3' -50 NC_001335.1 + 1696 0.69 0.844889
Target:  5'- -gGCGUccucgaGGAGGGCgcguUCGGUCGGGGugUc -3'
miRNA:   3'- gaUGUA------CUUCCUG----AGCCAGUUCCugG- -5'
1430 3' -50 NC_001335.1 + 16483 0.69 0.83582
Target:  5'- uCUGCAgguUGggGGugaucgCGGUCAGcaucGGGCCg -3'
miRNA:   3'- -GAUGU---ACuuCCuga---GCCAGUU----CCUGG- -5'
1430 3' -50 NC_001335.1 + 9186 0.69 0.816042
Target:  5'- -aACAUG-AGGAUgcgcgccgccgcgUCGGUCAucGACCg -3'
miRNA:   3'- gaUGUACuUCCUG-------------AGCCAGUucCUGG- -5'
1430 3' -50 NC_001335.1 + 43485 0.7 0.797359
Target:  5'- -cGCGUGgcGGAa--GGaCAAGGGCCa -3'
miRNA:   3'- gaUGUACuuCCUgagCCaGUUCCUGG- -5'
1430 3' -50 NC_001335.1 + 6935 0.71 0.734377
Target:  5'- -gGCGUGAuccgccggcucaAGGGCUgGGgCAAGGAUCc -3'
miRNA:   3'- gaUGUACU------------UCCUGAgCCaGUUCCUGG- -5'
1430 3' -50 NC_001335.1 + 22075 0.73 0.59919
Target:  5'- -gACAUGAucccGGACUgGGUCgAAGGAgCa -3'
miRNA:   3'- gaUGUACUu---CCUGAgCCAG-UUCCUgG- -5'
1430 3' -50 NC_001335.1 + 42106 0.74 0.57657
Target:  5'- -gGCGU--GGGACUCGGUCGucggcaAGGACg -3'
miRNA:   3'- gaUGUAcuUCCUGAGCCAGU------UCCUGg -5'
1430 3' -50 NC_001335.1 + 43690 0.76 0.45736
Target:  5'- uCUACGaGAAGG-CUCuGGcCGAGGGCCg -3'
miRNA:   3'- -GAUGUaCUUCCuGAG-CCaGUUCCUGG- -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.