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*.misa and *.statistic file differ in the identified ssr.
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HOMER findMotifsGenome.pl Local Optimisation Phase
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Motif location for enriched motif in HOMER
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Err:510 in MISA tool
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Homer motif analysis: "Very close % of target vs % of Background sequences with Motif" & "SeqBias a…
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Different Repeat Motif
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