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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 0.239 C 0.261 G 0.261 T 0.239 

MOTIF 1-YYTGGCAC STREME-1
letter-probability matrix: alength= 4 w= 8 nsites= 45 P= 2.5e-002
 0.001369 0.509108 0.142500 0.347022
 0.001369 0.622167 0.001497 0.374967
 0.001369 0.001497 0.001497 0.995636
 0.001369 0.001497 0.995764 0.001369
 0.001369 0.001497 0.995764 0.001369
 0.001369 0.995764 0.001497 0.001369
 0.787794 0.001497 0.001497 0.209211
 0.001369 0.876419 0.001497 0.120714

MOTIF 2-CTGCCAAA STREME-2
letter-probability matrix: alength= 4 w= 8 nsites= 14 P= 7.6e-001
 0.004175 0.987084 0.004567 0.004175
 0.004175 0.004567 0.004567 0.986692
 0.004175 0.004567 0.865901 0.125357
 0.125357 0.865901 0.004567 0.004175
 0.004175 0.987084 0.004567 0.004175
 0.986692 0.004567 0.004567 0.004175
 0.865510 0.004567 0.004567 0.125357
 0.661688 0.125749 0.004567 0.207997

MOTIF 3-CCAGGAGG STREME-3
letter-probability matrix: alength= 4 w= 8 nsites= 7 P= 1.0e+000
 0.021709 0.932836 0.023745 0.021709
 0.021709 0.932836 0.023745 0.021709
 0.930800 0.023745 0.023745 0.021709
 0.021709 0.023745 0.932836 0.021709
 0.021709 0.023745 0.932836 0.021709
 0.930800 0.023745 0.023745 0.021709
 0.021709 0.023745 0.932836 0.021709
 0.021709 0.023745 0.932836 0.021709

MOTIF 4-WRGGCCAA STREME-4
letter-probability matrix: alength= 4 w= 8 nsites= 14 P= 1.0e+000
 0.499241 0.202337 0.003106 0.295316
 0.377472 0.003106 0.616582 0.002840
 0.002840 0.003106 0.991215 0.002840
 0.002840 0.003106 0.991215 0.002840
 0.002840 0.991215 0.003106 0.002840
 0.002840 0.991215 0.003106 0.002840
 0.990948 0.003106 0.003106 0.002840
 0.990948 0.003106 0.003106 0.002840

MOTIF 5-CCCACAGY STREME-5
letter-probability matrix: alength= 4 w= 8 nsites= 9 P= 1.0e+000
 0.249703 0.741458 0.004618 0.004222
 0.004222 0.741458 0.004618 0.249703
 0.004222 0.986939 0.004618 0.004222
 0.986543 0.004618 0.004618 0.004222
 0.004222 0.986939 0.004618 0.004222
 0.986543 0.004618 0.004618 0.004222
 0.004222 0.004618 0.986939 0.004222
 0.004222 0.618123 0.004618 0.373037

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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/SMAD1.fasta --oc ../result/final_prediction/GM12878/inference_raw/STREME/RankLinear0.5_10_SMAD1/ --w 8 --nmotifs 5 --verbosity 1
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CPU:		c22n04.farnam.hpc.yale.internal
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FINALTIME:	0.66 seconds
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