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STREME - Sensitive, Thorough, Rapid, Enriched Motif Elicitation
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MEME version 5.3.3 (Release date: Sun Feb 7 15:39:52 2021 -0800)

For further information on how to interpret these results please access https://meme-suite.org/meme.
To get a copy of the MEME Suite software please access https://meme-suite.org.

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REFERENCE
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If you use this program in your research, please cite:

Timothy L. Bailey,
"STREME: Accurate and versatile sequence motif discovery",
bioRxiv, (preprint), Nov. 23, 2020.
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ALPHABET= ACGT

strands: + -

Background letter frequencies
A 0.205 C 0.295 G 0.295 T 0.205 

MOTIF 1-AACGCCCA STREME-1
letter-probability matrix: alength= 4 w= 8 nsites= 6 P= 5.0e-001
 0.927691 0.026855 0.026855 0.018600
 0.927691 0.026855 0.026855 0.018600
 0.018600 0.935945 0.026855 0.018600
 0.018600 0.026855 0.935945 0.018600
 0.018600 0.935945 0.026855 0.018600
 0.018600 0.935945 0.026855 0.018600
 0.018600 0.935945 0.026855 0.018600
 0.927691 0.026855 0.026855 0.018600

MOTIF 2-DCCAATCA STREME-2
letter-probability matrix: alength= 4 w= 8 nsites= 38 P= 7.0e-001
 0.356480 0.068049 0.327173 0.248298
 0.034298 0.949508 0.001420 0.014774
 0.000983 0.963299 0.001420 0.034298
 0.849128 0.034734 0.001420 0.114718
 0.929441 0.001420 0.001420 0.067719
 0.067719 0.128945 0.001420 0.801915
 0.048089 0.849564 0.101363 0.000983
 0.736546 0.134893 0.127578 0.000983

MOTIF 3-ACTCAGGC STREME-3
letter-probability matrix: alength= 4 w= 8 nsites= 6 P= 7.6e-001
 0.972375 0.010259 0.010259 0.007106
 0.007106 0.975529 0.010259 0.007106
 0.007106 0.010259 0.010259 0.972375
 0.007106 0.975529 0.010259 0.007106
 0.731640 0.010259 0.250995 0.007106
 0.007106 0.010259 0.975529 0.007106
 0.007106 0.010259 0.975529 0.007106
 0.007106 0.975529 0.010259 0.007106

MOTIF 4-GASKGRCA STREME-4
letter-probability matrix: alength= 4 w= 8 nsites= 47 P= 8.3e-001
 0.000887 0.031344 0.966881 0.000887
 0.996550 0.001281 0.001281 0.000887
 0.013332 0.422935 0.562845 0.000887
 0.091173 0.073949 0.315129 0.519750
 0.000887 0.001281 0.954436 0.043395
 0.532097 0.001281 0.465734 0.000887
 0.000887 0.996944 0.001281 0.000887
 0.730834 0.001281 0.266998 0.000887

MOTIF 5-ATGATAGA STREME-5
letter-probability matrix: alength= 4 w= 8 nsites= 6 P= 1.0e+000
 0.927691 0.026855 0.026855 0.018600
 0.018600 0.026855 0.026855 0.927691
 0.018600 0.026855 0.935945 0.018600
 0.927691 0.026855 0.026855 0.018600
 0.018600 0.026855 0.026855 0.927691
 0.927691 0.026855 0.026855 0.018600
 0.018600 0.026855 0.935945 0.018600
 0.927691 0.026855 0.026855 0.018600

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Stopped because maximum number of motifs (5) reached.
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COMMAND:	streme --p ../result/final_prediction/GM12878/fasta/RankLinear0.5_10/PKNOX1.fasta --oc ../result/final_prediction/GM12878/inference_raw/STREME/RankLinear0.5_10_PKNOX1/ --w 8 --nmotifs 5 --verbosity 1
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CPU:		c22n04.farnam.hpc.yale.internal
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FINALTIME:	1.23 seconds
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