<table><caption>Table S2. Neurospora strains used in this study.</caption><thead><tr><td>Genetic condition</td><td>Strain ID</td><td>Genotype</td><td>Source</td></tr></thead><tbody><tr><td>Strain O</td><td>C58.7</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3</td><td>ref. 16</td></tr><tr><td>Strain A</td><td>T647.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO</td><td>C58.7 transformed with pFOC104A</td></tr><tr><td>Strain B</td><td>T658.1</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp</td><td>T647.1h transformed with pTSN7B</td></tr><tr><td>Strain B::chd1Δ</td><td>T709.3h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; chd1Δ</td><td>T658.1 transformed with pFOC111B</td></tr><tr><td>Strain B::eri1Δ</td><td>T770.2h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; eri1Δ</td><td>T658.1 transformed with pSCR8B</td></tr><tr><td>Strain B::hda1Δ</td><td>T714.8h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; hda1Δ</td><td>T658.1 transformed with pFOC121B</td></tr><tr><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; qde-1Δ</td><td>T658.1 transformed with pFOC120B</td></tr><tr><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; qde-2Δ</td><td>T658.1 transformed with pFOC113B</td></tr><tr><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; qde-3Δ</td><td>T658.1 transformed with pFOC114B</td></tr><tr><td>Strain B::rad51Δ</td><td>T737.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; rad51Δ</td><td>T658.1 transformed with pFOC106B</td></tr><tr><td>Strain B::rad52Δ</td><td>T738.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; rad52Δ</td><td>T658.1 transformed with pFOC107B</td></tr><tr><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; rtt109Δ</td><td>T658.1 transformed with pFOC129B</td></tr><tr><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; sad-6Δ</td><td>T658.1 transformed with pFOC109B</td></tr><tr><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; flag-sad-6</td><td>T658.1 transformed with pFOC109N</td></tr><tr><td>Strain B::top3Δ</td><td>T812.11h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; top3Δ</td><td>T658.1 transformed with pSCR12B</td></tr><tr><td>Strain E</td><td>T601.2h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO</td><td>C58.7 transformed with pTSN6</td></tr><tr><td>Strain E::tetR-gfp</td><td>T753.1</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; csr-1::tetR-gfp</td><td>T601.2h transformed with pTSN7B</td></tr><tr><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; nit-2Δ</td><td>T601.2h transformed with pEAG276B</td></tr><tr><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; qde-1Δ</td><td>T601.2h transformed with pFOC120B</td></tr><tr><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; qde-3Δ</td><td>T601.2h transformed with pFOC114B</td></tr><tr><td>Strain E::rad51Δ</td><td>T847.3h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; rad51Δ</td><td>T601.2h transformed with pFOC106B</td></tr><tr><td>Strain E::rad52Δ</td><td>T848.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; rad52Δ</td><td>T601.2h transformed with pFOC107B</td></tr><tr><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; sad-6Δ</td><td>T601.2h transformed with pFOC109B</td></tr><tr><td>Strain G</td><td>C252.1</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; sad-2Δ</td><td>Cross progeny of C205.11 &amp; C244.9</td></tr><tr><td>Strain C</td><td>C290.6</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO</td><td>Cross progeny of T647.1h &amp; C252.1</td></tr><tr><td>Strain C::lacO(d1)</td><td>C290.6.C4</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(d1)-tetO</td><td>Clonal isolate of C290.6</td></tr><tr><td>Strain C::lacO(d2)</td><td>C290.6.C6</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(d2)-tetO</td><td>Clonal isolate of C290.6</td></tr><tr><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(d1)-tetO; csr-1::dim-5+</td><td>C290.6.C4 transformed with pEAG247A</td></tr><tr><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(d2)-tetO; csr-1::dim-5+</td><td>C290.6.C6 transformed with pEAG247A</td></tr><tr><td>Strain C::dim-5+</td><td>T663.2</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+</td><td>C290.6 transformed with pEAG247A (Strain D)</td></tr><tr><td>Strain C::qde-1Δ</td><td>T739.4h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; qde-1Δ</td><td>C290.6 transformed with pFOC120B</td></tr><tr><td>Strain C::rad51Δ</td><td>T678.5h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; rad51Δ</td><td>C290.6 transformed with pFOC106B</td></tr><tr><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; sad-6Δ</td><td>C290.6 transformed with pFOC109B</td></tr><tr><td>Strain D::chapΔ</td><td>T690.1h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+; chapΔ</td><td>T663.2 transformed with pFOC118B</td></tr><tr><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+; dim-7Δ</td><td>T663.2 transformed with pFOC116B</td></tr><tr><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+; dim-9Δ</td><td>T663.2 transformed with pFOC117B</td></tr><tr><td>Strain D::hda1Δ</td><td>T743.3h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+; hda1Δ</td><td>T663.2 transformed with pFOC121B</td></tr><tr><td>Strain F</td><td>C146.1</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3</td><td>ref. 16</td></tr><tr><td>Strain F::lacO(i1)</td><td>T724.2h</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i1)</td><td>C146.1 transformed with pFOC125A</td></tr><tr><td>Strain F::lacO(i2)</td><td>T726.1h</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i2)</td><td>C146.1 transformed with pFOC125C</td></tr><tr><td>Strain F::lacO(i3)</td><td>T728.1h</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i3)</td><td>C146.1 transformed with pFOC125E</td></tr><tr><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i1); csr-1::dim-5+</td><td>T724.2h transformed with pEAG247A</td></tr><tr><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i2); csr-1::dim-5+</td><td>T726.1h transformed with pEAG247A</td></tr><tr><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i3); csr-1::dim-5+</td><td>T728.1h transformed with pEAG247A</td></tr></tbody></table>
<table><caption>Table S2. Neurospora strains used in this study.</caption><thead><tr><td>Genetic condition</td><td>Strain ID</td><td>Genotype</td><td>Source</td></tr></thead><tbody><tr><td>Strain O</td><td>C58.7</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3</td><td>ref. 16</td></tr><tr><td>Strain A</td><td>T647.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO</td><td>C58.7 transformed with pFOC104A</td></tr><tr><td>Strain B</td><td>T658.1</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp</td><td>T647.1h transformed with pTSN7B</td></tr><tr><td>Strain B::chd1Δ</td><td>T709.3h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; chd1Δ</td><td>T658.1 transformed with pFOC111B</td></tr><tr><td>Strain B::eri1Δ</td><td>T770.2h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; eri1Δ</td><td>T658.1 transformed with pSCR8B</td></tr><tr><td>Strain B::hda1Δ</td><td>T714.8h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; hda1Δ</td><td>T658.1 transformed with pFOC121B</td></tr><tr><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; qde-1Δ</td><td>T658.1 transformed with pFOC120B</td></tr><tr><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; qde-2Δ</td><td>T658.1 transformed with pFOC113B</td></tr><tr><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; qde-3Δ</td><td>T658.1 transformed with pFOC114B</td></tr><tr><td>Strain B::rad51Δ</td><td>T737.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; rad51Δ</td><td>T658.1 transformed with pFOC106B</td></tr><tr><td>Strain B::rad52Δ</td><td>T738.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; rad52Δ</td><td>T658.1 transformed with pFOC107B</td></tr><tr><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; rtt109Δ</td><td>T658.1 transformed with pFOC129B</td></tr><tr><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; sad-6Δ</td><td>T658.1 transformed with pFOC109B</td></tr><tr><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; flag-sad-6</td><td>T658.1 transformed with pFOC109N</td></tr><tr><td>Strain B::top3Δ</td><td>T812.11h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::tetR-gfp; top3Δ</td><td>T658.1 transformed with pSCR12B</td></tr><tr><td>Strain E</td><td>T601.2h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO</td><td>C58.7 transformed with pTSN6</td></tr><tr><td>Strain E::tetR-gfp</td><td>T753.1</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; csr-1::tetR-gfp</td><td>T601.2h transformed with pTSN7B</td></tr><tr><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; nit-2Δ</td><td>T601.2h transformed with pEAG276B</td></tr><tr><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; qde-1Δ</td><td>T601.2h transformed with pFOC120B</td></tr><tr><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; qde-3Δ</td><td>T601.2h transformed with pFOC114B</td></tr><tr><td>Strain E::rad51Δ</td><td>T847.3h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; rad51Δ</td><td>T601.2h transformed with pFOC106B</td></tr><tr><td>Strain E::rad52Δ</td><td>T848.1h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; rad52Δ</td><td>T601.2h transformed with pFOC107B</td></tr><tr><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>a; ridΔ; dim-2Δ; mus-52Δ; his-3+::tetO; sad-6Δ</td><td>T601.2h transformed with pFOC109B</td></tr><tr><td>Strain G</td><td>C252.1</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; sad-2Δ</td><td>Cross progeny of C205.11 &amp; C244.9</td></tr><tr><td>Strain C</td><td>C290.6</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO</td><td>Cross progeny of T647.1h &amp; C252.1</td></tr><tr><td>Strain C::lacO(d1)</td><td>C290.6.C4</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(d1)-tetO</td><td>Clonal isolate of C290.6</td></tr><tr><td>Strain C::lacO(d2)</td><td>C290.6.C6</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(d2)-tetO</td><td>Clonal isolate of C290.6</td></tr><tr><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(d1)-tetO; csr-1::dim-5+</td><td>C290.6.C4 transformed with pEAG247A</td></tr><tr><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(d2)-tetO; csr-1::dim-5+</td><td>C290.6.C6 transformed with pEAG247A</td></tr><tr><td>Strain C::dim-5+</td><td>T663.2</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+</td><td>C290.6 transformed with pEAG247A (Strain D)</td></tr><tr><td>Strain C::qde-1Δ</td><td>T739.4h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; qde-1Δ</td><td>C290.6 transformed with pFOC120B</td></tr><tr><td>Strain C::rad51Δ</td><td>T678.5h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; rad51Δ</td><td>C290.6 transformed with pFOC106B</td></tr><tr><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; sad-6Δ</td><td>C290.6 transformed with pFOC109B</td></tr><tr><td>Strain D::chapΔ</td><td>T690.1h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+; chapΔ</td><td>T663.2 transformed with pFOC118B</td></tr><tr><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+; dim-7Δ</td><td>T663.2 transformed with pFOC116B</td></tr><tr><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+; dim-9Δ</td><td>T663.2 transformed with pFOC117B</td></tr><tr><td>Strain D::hda1Δ</td><td>T743.3h</td><td>A; ridΔ; dim-2Δ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO-tetO; csr-1::dim-5+; hda1Δ</td><td>T663.2 transformed with pFOC121B</td></tr><tr><td>Strain F</td><td>C146.1</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3</td><td>ref. 16</td></tr><tr><td>Strain F::lacO(i1)</td><td>T724.2h</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i1)</td><td>C146.1 transformed with pFOC125A</td></tr><tr><td>Strain F::lacO(i2)</td><td>T726.1h</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i2)</td><td>C146.1 transformed with pFOC125C</td></tr><tr><td>Strain F::lacO(i3)</td><td>T728.1h</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i3)</td><td>C146.1 transformed with pFOC125E</td></tr><tr><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i1); csr-1::dim-5+</td><td>T724.2h transformed with pEAG247A</td></tr><tr><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i2); csr-1::dim-5+</td><td>T726.1h transformed with pEAG247A</td></tr><tr><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>a; ridΔ; dim-5Δ; set-7Δ; mus-52Δ; his-3+::lacO(i3); csr-1::dim-5+</td><td>T728.1h transformed with pEAG247A</td></tr></tbody></table>
<table><caption>Table S3. Diagnostic primers used in this study.</caption><thead><tr><td>Primer name</td><td>Internal ID</td><td>Sequence</td></tr></thead><tbody><tr><td>P1</td><td>HIS3_F4.2</td><td>GTGGATGTCACAATGTCCCT</td></tr><tr><td>P2</td><td>KMR_F1</td><td>ACATGGCAAAGGTAGCGTTG</td></tr><tr><td>P3</td><td>KMR_R1</td><td>TTCCGACTCGTCCAACATCA</td></tr><tr><td>P4</td><td>F104A_SEQ12</td><td>CAATTCGCGGCACAACTCTA</td></tr><tr><td>P5</td><td>F104A_SEQ14</td><td>TCTAGCAAGAGTGGGGATCC</td></tr><tr><td>P6</td><td>P62_SEQ3</td><td>TATAGAGAGCCACTGCGGGA</td></tr><tr><td>P7</td><td>P62_SEQ4</td><td>CCGTGGGTCGATGTTTGATG</td></tr><tr><td>P8</td><td>HIS3_R7</td><td>AGCGAACGAAACCCCTGAAAC</td></tr><tr><td>P9</td><td>SPO11_F</td><td>GTGTCGGAAGTCCCATTACCA</td></tr><tr><td>P10</td><td>SPO11_R</td><td>GTGACGCTGTGTAGTCGCTTG</td></tr></tbody></table>
<table><caption>Table S3. Diagnostic primers used in this study.</caption><thead><tr><td>Primer name</td><td>Internal ID</td><td>Sequence</td></tr></thead><tbody><tr><td>P1</td><td>HIS3_F4.2</td><td>GTGGATGTCACAATGTCCCT</td></tr><tr><td>P2</td><td>KMR_F1</td><td>ACATGGCAAAGGTAGCGTTG</td></tr><tr><td>P3</td><td>KMR_R1</td><td>TTCCGACTCGTCCAACATCA</td></tr><tr><td>P4</td><td>F104A_SEQ12</td><td>CAATTCGCGGCACAACTCTA</td></tr><tr><td>P5</td><td>F104A_SEQ14</td><td>TCTAGCAAGAGTGGGGATCC</td></tr><tr><td>P6</td><td>P62_SEQ3</td><td>TATAGAGAGCCACTGCGGGA</td></tr><tr><td>P7</td><td>P62脂SEQ4</td><td>CCGTGGGTCGATGTTTGATG</td></tr><tr><td>P8</td><td>HIS3_R7</td><td>AGCGAACGAAACCCCTGAAAC</td></tr><tr><td>P9</td><td>SPO11_F</td><td>GTGTCGGAAGTCCCATTACCA</td></tr><tr><td>P10</td><td>SPO11_R</td><td>GTGACGCTGTGTAGTCGCTTG</td></tr></tbody></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study.</caption><thead><tr><th>#</th><th>Genetic condition</th><th>Strain ID</th><th>Library</th><th>IP (or Input)</th><th>Alignment rate (%)</th><th>Aligned reads *</th><th>Input library</th><th>Additional conditions</th></tr></thead><tbody><tr><td>1</td><td>Strain A</td><td>T647.1h</td><td>CD397_i17_A</td><td>GFP</td><td>98.3</td><td>7929410</td><td>CD394_i14_A</td><td></td></tr><tr><td>2</td><td>Strain A</td><td>T647.1h</td><td>CD593_i44_A</td><td>GFP</td><td>87.2</td><td>8976252</td><td>CD590_i48_A</td><td></td></tr><tr><td>3</td><td>Strain A</td><td>T647.1h</td><td>CD2_i3_A</td><td>H3K9me3</td><td>96.5</td><td>5257486</td><td>CD1_i1_A</td><td></td></tr><tr><td>4</td><td>Strain A</td><td>T647.1h</td><td>CD396_i16_A</td><td>H3K9me3</td><td>97.4</td><td>7609395</td><td>CD394_i14_A</td><td></td></tr><tr><td>5</td><td>Strain A</td><td>T647.1h</td><td>CD8_i5_A</td><td>hH3</td><td>99.0</td><td>7766288</td><td>CD1_i1_A</td><td></td></tr><tr><td>6</td><td>Strain A</td><td>T647.1h</td><td>CD395_i15_A</td><td>hH3</td><td>98.9</td><td>7798269</td><td>CD394_i14_A</td><td></td></tr><tr><td>7</td><td>Strain A</td><td>T647.1h</td><td>CD1_i1_A</td><td>Input</td><td>99.0</td><td>5636932</td><td>N/A</td><td></td></tr><tr><td>8</td><td>Strain A</td><td>T647.1h</td><td>CD394_i14_A</td><td>Input</td><td>99.0</td><td>8815831</td><td>N/A</td><td></td></tr><tr><td>9</td><td>Strain A</td><td>T647.1h</td><td>CD590_i48_A</td><td>Input</td><td>99.0</td><td>11094748</td><td>N/A</td><td></td></tr><tr><td>10</td><td>Strain B</td><td>T658.1</td><td>CD669_i48_A</td><td>FLAG</td><td>96.2</td><td>8815307</td><td>CD529_i11_A</td><td></td></tr><tr><td>11</td><td>Strain B</td><td>T658.1</td><td>CD671_i47_A</td><td>FLAG</td><td>96.7</td><td>10365761</td><td>CD594_i27_A</td><td></td></tr><tr><td>12</td><td>Strain B</td><td>T658.1</td><td>CD463_i8_A</td><td>GFP</td><td>97.3</td><td>8909320</td><td>CD459_i43_A</td><td>Tc</td></tr><tr><td>13</td><td>Strain B</td><td>T658.1</td><td>CD477_i10_A</td><td>GFP</td><td>98.7</td><td>6396447</td><td>CD473_i5_A</td><td>Tc</td></tr><tr><td>14</td><td>Strain B</td><td>T658.1</td><td>CD28_i19_A</td><td>GFP</td><td>96.9</td><td>10006244</td><td>CD26_i17_A</td><td></td></tr><tr><td>15</td><td>Strain B</td><td>T658.1</td><td>CD221_i6_A</td><td>GFP</td><td>93.1</td><td>4276945</td><td>CD220_i5_A</td><td></td></tr><tr><td>16</td><td>Strain B</td><td>T658.1</td><td>CD461_i45_A</td><td>H3K9me3</td><td>97.3</td><td>8697139</td><td>CD459_i43_A</td><td>Tc</td></tr><tr><td>17</td><td>Strain B</td><td>T658.1</td><td>CD475_i7_A</td><td>H3K9me3</td><td>97.2</td><td>6597607</td><td>CD473_i5_A</td><td>Tc</td></tr><tr><td>18</td><td>Strain B</td><td>T658.1</td><td>CD29_i20_A</td><td>H3K9me3</td><td>97.6</td><td>10922524</td><td>CD26_i17_A</td><td></td></tr><tr><td>19</td><td>Strain B</td><td>T658.1</td><td>CD92_i43_A</td><td>H3K9me3</td><td>96.9</td><td>7653828</td><td>CD89_i40_A</td><td></td></tr><tr><td>20</td><td>Strain B</td><td>T658.1</td><td>CD731_i26_A</td><td>hH2B</td><td>99.0</td><td>9636938</td><td>CD459_i43_A</td><td>Tc</td></tr><tr><td>21</td><td>Strain B</td><td>T658.1</td><td>CD732_i27_A</td><td>hH2B</td><td>99.0</td><td>9454969</td><td>CD473_i5_A</td><td>Tc</td></tr><tr><td>22</td><td>Strain B</td><td>T658.1</td><td>CD729_i24_A</td><td>hH2B</td><td>98.8</td><td>9106248</td><td>CD529_i11_A</td><td></td></tr><tr><td>23</td><td>Strain B</td><td>T658.1</td><td>CD730_i25_A</td><td>hH2B</td><td>99.0</td><td>9851625</td><td>CD594_i27_A</td><td></td></tr><tr><td>24</td><td>Strain B</td><td>T658.1</td><td>CD460_i44_A</td><td>hH3</td><td>98.8</td><td>11649989</td><td>CD459_i43_A</td><td>Tc</td></tr><tr><td>25</td><td>Strain B</td><td>T658.1</td><td>CD474_i6_A</td><td>hH3</td><td>99.0</td><td>6252061</td><td>CD473_i5_A</td><td>Tc</td></tr><tr><td>26</td><td>Strain B</td><td>T658.1</td><td>CD27_i18_A</td><td>hH3</td><td>99.0</td><td>7549064</td><td>CD26_i17_A</td><td></td></tr><tr><td>27</td><td>Strain B</td><td>T658.1</td><td>CD90_i41_A</td><td>hH3</td><td>98.8</td><td>7775513</td><td>CD89_i40_A</td><td></td></tr><tr><td>28</td><td>Strain B</td><td>T658.1</td><td>CD459_i43_A</td><td>Input</td><td>99.1</td><td>15466837</td><td>N/A</td><td>Tc</td></tr><tr><td>29</td><td>Strain B</td><td>T658.1</td><td>CD473_i5_A</td><td>Input</td><td>99.0</td><td>10379300</td><td>N/A</td><td>Tc</td></tr><tr><td>30</td><td>Strain B</td><td>T658.1</td><td>CD26_i17_A</td><td>Input</td><td>99.0</td><td>6046340</td><td>N/A</td><td></td></tr><tr><td>31</td><td>Strain B</td><td>T658.1</td><td>CD89_i40_A</td><td>Input</td><td>98.9</td><td>8480540</td><td>N/A</td><td></td></tr><tr><td>32</td><td>Strain B</td><td>T658.1</td><td>CD220_i5_A</td><td>Input</td><td>98.7</td><td>7247386</td><td>N/A</td><td></td></tr><tr><td>33</td><td>Strain B</td><td>T658.1</td><td>CD529_i11_A</td><td>Input</td><td>98.9</td><td>8477778</td><td>N/A</td><td></td></tr><tr><td>34</td><td>Strain B</td><td>T658.1</td><td>CD594_i27_A</td><td>Input</td><td>98.8</td><td>9366140</td><td>N/A</td><td></td></tr><tr><td>35</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD182_i20_A</td><td>H3K9me3</td><td>97.3</td><td>10597328</td><td>CD180_i18_A</td><td></td></tr><tr><td>36</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD441_i25_A</td><td>H3K9me3</td><td>97.7</td><td>10717376</td><td>CD439_i23_A</td><td></td></tr><tr><td>37</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD181_i19_A</td><td>hH3</td><td>81.4</td><td>8090865</td><td>CD180_i18_A</td><td></td></tr><tr><td>38</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD440_i24_A</td><td>hH3</td><td>99.0</td><td>9477493</td><td>CD439_i23_A</td><td></td></tr><tr><td>39</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD180_i18_A</td><td>Input</td><td>98.6</td><td>8172534</td><td>N/A</td><td></td></tr><tr><td>40</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD439_i23_A</td><td>Input</td><td>99.2</td><td>8324205</td><td>N/A</td><td></td></tr><tr><td>41</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD240_i22_A</td><td>H3K9me3</td><td>96.5</td><td>8209183</td><td>CD238_i20_A</td><td></td></tr><tr><td>42</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD431_i15_A</td><td>H3K9me3</td><td>97.5</td><td>9112162</td><td>CD429_i13_A</td><td></td></tr><tr><td>43</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD430_i14_A</td><td>hH3</td><td>99.1</td><td>7200067</td><td>CD429_i13_A</td><td></td></tr><tr><td>44</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD239_i21_A</td><td>hH3</td><td>98.3</td><td>7230932</td><td>CD238_i20_A</td><td></td></tr></tbody></table>

<footnote>* Number of aligned reads is reported for the nuclear genome (corresponding to the interval 64841-41123470 in mNC12.lacO-tetO)</footnote>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study.</caption><thead><tr><th>#</th><th>Genetic condition</th><th>Strain ID</th><th>Library</th><th>IP (or Input)</th><th>Alignment rate (%)</th><th>Aligned reads *</th><th>Input library</th><th>Additional conditions</th></tr></thead><tbody><tr><td>1</td><td>Strain A</td><td>T647.1h</td><td>CD397_i17_A</td><td>GFP</td><td>98.3</td><td>7929410</td><td>CD394_i14_A</td><td></td></tr><tr><td>2</td><td>Strain A</td><td>T647.1h</td><td>CD593_i44_A</td><td>GFP</td><td>87.2</td><td>8976252</td><td>CD590_i48_A</td><td></td></tr><tr><td>3</td><td>Strain A</td><td>T647.1h</td><td>CD2_i3_A</td><td>H3K9me3</td><td>96.5</td><td>5257486</td><td>CD1_i1_A</td><td></td></tr><tr><td>4</td><td>Strain A</td><td>T647.1h</td><td>CD396_i16_A</td><td>H3K9me3</td><td>97.4</td><td>7609395</td><td>CD394_i14_A</td><td></td></tr><tr><td>5</td><td>Strain A</td><td>T647.1h</td><td>CD8_i5_A</td><td>hH3</td><td>99.0</td><td>7766288</td><td>CD1_i1_A</td><td></td></tr><tr><td>6</td><td>Strain A</td><td>T647.1h</td><td>CD395_i15_A</td><td>hH3</td><td>98.9</td><td>7798269</td><td>CD394_i14_A</td><td></td></tr><tr><td>7</td><td>Strain A</td><td>T647.1h</td><td>CD1_i1_A</td><td>Input</td><td>99.0</td><td>5636932</td><td>N/A</td><td></td></tr><tr><td>8</td><td>Strain A</td><td>T647.1h</td><td>CD394_i14_A</td><td>Input</td><td>99.0</td><td>8815831</td><td>N/A</td><td></td></tr><tr><td>9</td><td>Strain A</td><td>T647.1h</td><td>CD590_i48_A</td><td>Input</td><td>99.0</td><td>11094748</td><td>N/A</td><td></td></tr><tr><td>10</td><td>Strain B</td><td>T658.1</td><td>CD669_i48_A</td><td>FLAG</td><td>96.2</td><td>8815307</td><td>CD529_i11_A</td><td></td></tr><tr><td>11</td><td>Strain B</td><td>T658.1</td><td>CD671_i47_A</td><td>FLAG</td><td>96.7</td><td>10365761</td><td>CD594_i27_A</td><td></td></tr><tr><td>12</td><td>Strain B</td><td>T658.1</td><td>CD463_i8_A</td><td>GFP</td><td>97.3</td><td>8909320</td><td>CD459_i43_A</td><td>Tc</td></tr><tr><td>13</td><td>Strain B</td><td>T658.1</td><td>CD477_i10_A</td><td>GFP</td><td>98.7</td><td>6396447</td><td>CD473_i5_A</td><td>Tc</td></tr><tr><td>14</td><td>Strain B</td><td>T658.1</td><td>CD28_i19_A</td><td>GFP</td><td>96.9</td><td>10006244</td><td>CD26_i17_A</td><td></td></tr><tr><td>15</td><td>Strain B</td><td>T658.1</td><td>CD221_i6_A</td><td>GFP</td><td>93.1</td><td>4276945</td><td>CD220_i5_A</td><td></td></tr><tr><td>16</td><td>Strain B</td><td>T658.1</td><td>CD461_i45_A</td><td>H3K9me3</td><td>97.3</td><td>8697139</td><td>CD459_i43_A</td><td>Tc</td></tr><tr><td>17</td><td>Strain B</td><td>T658.1</td><td>CD475_i7_A</td><td>H3K9me3</td><td>97.2</td><td>6597607</td><td>CD473_i5_A</td><td>Tc</td></tr><tr><td>18</td><td>Strain B</td><td>T658.1</td><td>CD29_i20_A</td><td>H3K9me3</td><td>97.6</td><td>10922524</td><td>CD26_i17_A</td><td></td></tr><tr><td>19</td><td>Strain B</td><td>T658.1</td><td>CD92_i43_A</td><td>H3K9me3</td><td>96.9</td><td>7653828</td><td>CD89_i40_A</td><td></td></tr><tr><td>20</td><td>Strain B</td><td>T658.1</td><td>CD731_i26_A</td><td>hH2B</td><td>99.0</td><td>9636938</td><td>CD459_i43_A</td><td>Tc</td></tr><tr><td>21</td><td>Strain B</td><td>T658.1</td><td>CD732_i27_A</td><td>hH2B</td><td>99.0</td><td>9454969</td><td>CD473_i5_A</td><td>Tc</td></tr><tr><td>22</td><td>Strain B</td><td>T658.1</td><td>CD729_i24_A</td><td>hH2B</td><td>98.8</td><td>9106248</td><td>CD529_i11_A</td><td></td></tr><tr><td>23</td><td>Strain B</td><td>T658.1</td><td>CD730_i25_A</td><td>hH2B</td><td>99.0</td><td>9851625</td><td>CD594_i27_A</td><td></td></tr><tr><td>24</td><td>Strain B</td><td>T658.1</td><td>CD460_i44_A</td><td>hH3</td><td>98.8</td><td>11649989</td><td>CD459_i43_A</td><td>Tc</td></tr><tr><td>25</td><td>Strain B</td><td>T658.1</td><td>CD474_i6_A</td><td>hH3</td><td>99.0</td><td>6252061</td><td>CD473_i5_A</td><td>Tc</td></tr><tr><td>26</td><td>Strain B</td><td>T658.1</td><td>CD27_i18_A</td><td>hH3</td><td>99.0</td><td>7549064</td><td>CD26_i17_A</td><td></td></tr><tr><td>27</td><td>Strain B</td><td>T658.1</td><td>CD90_i41_A</td><td>hH3</td><td>98.8</td><td>7775513</td><td>CD89_i40_A</td><td></td></tr><tr><td>28</td><td>Strain B</td><td>T658.1</td><td>CD459_i43_A</td><td>Input</td><td>99.1</td><td>15466837</td><td>N/A</td><td>Tc</td></tr><tr><td>29</td><td>Strain B</td><td>T658.1</td><td>CD473_i5_A</td><td>Input</td><td>99.0</td><td>10379300</td><td>N/A</td><td>Tc</td></tr><tr><td>30</td><td>Strain B</td><td>T658.1</td><td>CD26_i17_A</td><td>Input</td><td>99.0</td><td>6046340</td><td>N/A</td><td></td></tr><tr><td>31</td><td>Strain B</td><td>T658.1</td><td>CD89_i40_A</td><td>Input</td><td>98.9</td><td>8480540</td><td>N/A</td><td></td></tr><tr><td>32</td><td>Strain B</td><td>T658.1</td><td>CD220_i5_A</td><td>Input</td><td>98.7</td><td>7247386</td><td>N/A</td><td></td></tr><tr><td>33</td><td>Strain B</td><td>T658.1</td><td>CD529_i11_A</td><td>Input</td><td>98.9</td><td>8477778</td><td>N/A</td><td></td></tr><tr><td>34</td><td>Strain B</td><td>T658.1</td><td>CD594_i27_A</td><td>Input</td><td>98.8</td><td>9366140</td><td>N/A</td><td></td></tr><tr><td>35</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD182_i20_A</td><td>H3K9me3</td><td>97.3</td><td>10597328</td><td>CD180_i18_A</td><td></td></tr><tr><td>36</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD441_i25_A</td><td>H3K9me3</td><td>97.7</td><td>10717376</td><td>CD439_i23_A</td><td></td></tr><tr><td>37</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD181_i19_A</td><td>hH3</td><td>81.4</td><td>8090865</td><td>CD180_i18_A</td><td></td></tr><tr><td>38</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD440_i24_A</td><td>hH3</td><td>99.0</td><td>9477493</td><td>CD439_i23_A</td><td></td></tr><tr><td>39</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD180_i18_A</td><td>Input</td><td>98.6</td><td>8172534</td><td>N/A</td><td></td></tr><tr><td>40</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>CD439_i23_A</td><td>Input</td><td>99.2</td><td>8324205</td><td>N/A</td><td></td></tr><tr><td>41</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD240_i22_A</td><td>H3K9me3</td><td>96.5</td><td>8209183</td><td>CD238_i20_A</td><td></td></tr><tr><td>42</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD431_i15_A</td><td>H3K9me3</td><td>97.5</td><td>9112162</td><td>CD429_i13_A</td><td></td></tr><tr><td>43</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD430_i14_A</td><td>hH3</td><td>99.1</td><td>7200067</td><td>CD429_i13_A</td><td></td></tr><tr><td>44</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD239_i21_A</td><td>hH3</td><td>98.3</td><td>7230932</td><td>CD238_i20_A</td><td></td></tr></tbody></table>

<footnote>* Number of aligned reads is reported for the nuclear genome (corresponding to the interval 64841-41123470 in mNC12.lacO-tetO)</footnote>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tr><td>45</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD429_i13_A</td><td>Input</td><td>99.0</td><td>8010217</td><td>N/A</td><td></td></tr><tr><td>46</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD238_i20_A</td><td>Input</td><td>98.7</td><td>10293198</td><td>N/A</td><td></td></tr><tr><td>47</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD528_i32_A</td><td>FLAG</td><td>37.1</td><td>4506548</td><td>CD527_i4_A</td><td>BI</td></tr><tr><td>48</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD763_i33_A</td><td>FLAG</td><td>98.5</td><td>10738768</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>49</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD764_i34_A</td><td>FLAG</td><td>96.6</td><td>9150853</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>50</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD765_i35_A</td><td>FLAG</td><td>97.1</td><td>10576241</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>51</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD766_i36_A</td><td>FLAG</td><td>98.0</td><td>12321810</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>52</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD675_i43_A</td><td>GFP</td><td>97.9</td><td>10072417</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>53</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD604_i39_A</td><td>GFP</td><td>97.3</td><td>10537132</td><td>CD601_i43_A</td><td>BI+Tc</td></tr><tr><td>54</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD680_i38_A</td><td>GFP</td><td>98.4</td><td>10691467</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>55</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD674_i44_A</td><td>H3K9me3</td><td>96.8</td><td>10377412</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>56</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD799_i38_A</td><td>H3K9me3</td><td>91.3</td><td>5666258</td><td>CD527_i4_A</td><td>BI</td></tr><tr><td>57</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD603_i40_A</td><td>H3K9me3</td><td>97.6</td><td>9444811</td><td>CD601_i43_A</td><td>BI+Tc</td></tr><tr><td>58</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD679_i39_A</td><td>H3K9me3</td><td>97.3</td><td>10487142</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>59</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD673_i45_A</td><td>hH3</td><td>98.6</td><td>10431332</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>60</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD798_i37_A</td><td>hH3</td><td>98.8</td><td>7057779</td><td>CD527_i4_A</td><td>BI</td></tr><tr><td>61</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD602_i41_A</td><td>hH3</td><td>98.8</td><td>10748400</td><td>CD601_i43_A</td><td>BI+Tc</td></tr><tr><td>62</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD678_i40_A</td><td>hH3</td><td>98.8</td><td>10514385</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>63</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD527_i4_A</td><td>Input</td><td>98.9</td><td>10730984</td><td>N/A</td><td>BI</td></tr><tr><td>64</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD672_i46_A</td><td>Input</td><td>98.8</td><td>11006000</td><td>N/A</td><td>BI</td></tr><tr><td>65</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD601_i43_A</td><td>Input</td><td>98.9</td><td>10390350</td><td>N/A</td><td>BI+Tc</td></tr><tr><td>66</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD677_i41_A</td><td>Input</td><td>98.8</td><td>11240383</td><td>N/A</td><td>BI+Tc</td></tr><tr><td>67</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>CD138_i34_A</td><td>H3K9me3</td><td>96.8</td><td>5320153</td><td>CD136_i17_A</td><td></td></tr><tr><td>68</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>CD137_i19_A</td><td>hH3</td><td>99.1</td><td>7581904</td><td>CD136_i17_A</td><td></td></tr><tr><td>69</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>CD136_i17_A</td><td>Input</td><td>98.9</td><td>7478362</td><td>N/A</td><td></td></tr><tr><td>70</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD424_i1_A</td><td>GFP</td><td>97.2</td><td>8583286</td><td>CD421_i5_A</td><td></td></tr><tr><td>71</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD435_i19_A</td><td>GFP</td><td>93.1</td><td>7774689</td><td>CD432_i16_A</td><td></td></tr><tr><td>72</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD423_i7_A</td><td>H3K9me3</td><td>97.3</td><td>7300690</td><td>CD421_i5_A</td><td></td></tr><tr><td>73</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD434_i18_A</td><td>H3K9me3</td><td>97.2</td><td>8452778</td><td>CD432_i16_A</td><td></td></tr><tr><td>74</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD422_i6_A</td><td>hH3</td><td>99.0</td><td>8298992</td><td>CD421_i5_A</td><td></td></tr><tr><td>75</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD433_i17_A</td><td>hH3</td><td>98.9</td><td>9519976</td><td>CD432_i16_A</td><td></td></tr><tr><td>76</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD421_i5_A</td><td>Input</td><td>99.0</td><td>8638738</td><td>N/A</td><td></td></tr><tr><td>77</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD432_i16_A</td><td>Input</td><td>99.0</td><td>7704419</td><td>N/A</td><td></td></tr><tr><td>78</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD196_i32_A</td><td>H3K9me3</td><td>96.6</td><td>7747370</td><td>CD194_i30_A</td><td></td></tr><tr><td>79</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD438_i22_A</td><td>H3K9me3</td><td>97.0</td><td>8674141</td><td>CD436_i20_A</td><td></td></tr><tr><td>80</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD195_i31_A</td><td>hH3</td><td>98.5</td><td>8368280</td><td>CD194_i30_A</td><td></td></tr><tr><td>81</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD437_i21_A</td><td>hH3</td><td>69.3</td><td>6663839</td><td>CD436_i20_A</td><td></td></tr><tr><td>82</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD194_i30_A</td><td>Input</td><td>98.5</td><td>8488470</td><td>N/A</td><td></td></tr><tr><td>83</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD436_i20_A</td><td>Input</td><td>99.1</td><td>9493385</td><td>N/A</td><td></td></tr><tr><td>84</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD428_i12_A</td><td>GFP</td><td>97.8</td><td>6900465</td><td>CD425_i9_A</td><td></td></tr><tr><td>85</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD445_i29_A</td><td>GFP</td><td>98.6</td><td>6917632</td><td>CD442_i26_A</td><td></td></tr><tr><td>86</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD129_i44_A</td><td>H3K9me3</td><td>96.8</td><td>8243938</td><td>CD127_i43_A</td><td></td></tr><tr><td>87</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD444_i28_A</td><td>H3K9me3</td><td>97.2</td><td>8428380</td><td>CD442_i26_A</td><td></td></tr><tr><td>88</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD427_i11_A</td><td>H3K9me3</td><td>97.4</td><td>6846737</td><td>CD425_i9_A</td><td></td></tr><tr><td>89</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD128_i15_A</td><td>hH3</td><td>98.8</td><td>7664057</td><td>CD127_i43_A</td><td></td></tr><tr><td>90</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD426_i10_A</td><td>hH3</td><td>99.1</td><td>7094939</td><td>CD425_i9_A</td><td></td></tr><tr><td>91</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD443_i27_A</td><td>hH3</td><td>97.3</td><td>8516563</td><td>CD442_i26_A</td><td></td></tr><tr><td>92</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD127_i43_A</td><td>Input</td><td>98.8</td><td>8261073</td><td>N/A</td><td></td></tr><tr><td>93</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD442_i26_A</td><td>Input</td><td>99.1</td><td>6015297</td><td>N/A</td><td></td></tr><tr><td>94</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD425_i9_A</td><td>Input</td><td>99.1</td><td>7512143</td><td>N/A</td><td></td></tr></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tr><td>45</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD429_i13_A</td><td>Input</td><td>99.0</td><td>8010217</td><td>N/A</td><td></td></tr><tr><td>46</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>CD238_i20_A</td><td>Input</td><td>98.7</td><td>10293198</td><td>N/A</td><td></td></tr><tr><td>47</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD528_i32_A</td><td>FLAG</td><td>37.1</td><td>4506548</td><td>CD527_i4_A</td><td>BI</td></tr><tr><td>48</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD763_i33_A</td><td>FLAG</td><td>98.5</td><td>10738768</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>49</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD764_i34_A</td><td>FLAG</td><td>96.6</td><td>9150853</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>50</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD765_i35_A</td><td>FLAG</td><td>97.1</td><td>10576241</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>51</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD766_i36_A</td><td>FLAG</td><td>98.0</td><td>12321810</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>52</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD675_i43_A</td><td>GFP</td><td>97.9</td><td>10072417</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>53</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD604_i39_A</td><td>GFP</td><td>97.3</td><td>10537132</td><td>CD601_i43_A</td><td>BI+Tc</td></tr><tr><td>54</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD680_i38_A</td><td>GFP</td><td>98.4</td><td>10691467</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>55</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD674_i44_A</td><td>H3K9me3</td><td>96.8</td><td>10377412</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>56</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD799_i38_A</td><td>H3K9me3</td><td>91.3</td><td>5666258</td><td>CD527_i4_A</td><td>BI</td></tr><tr><td>57</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD603_i40_A</td><td>H3K9me3</td><td>97.6</td><td>9444811</td><td>CD601_i43_A</td><td>BI+Tc</td></tr><tr><td>58</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD679_i39_A</td><td>H3K9me3</td><td>97.3</td><td>10487142</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>59</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD673_i45_A</td><td>hH3</td><td>98.6</td><td>10431332</td><td>CD672_i46_A</td><td>BI</td></tr><tr><td>60</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD798_i37_A</td><td>hH3</td><td>98.8</td><td>7057779</td><td>CD527_i4_A</td><td>BI</td></tr><tr><td>61</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD602_i41_A</td><td>hH3</td><td>98.8</td><td>10748400</td><td>CD601_i43_A</td><td>BI+Tc</td></tr><tr><td>62</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD678_i40_A</td><td>hH3</td><td>98.8</td><td>10514385</td><td>CD677_i41_A</td><td>BI+Tc</td></tr><tr><td>63</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD527_i4_A</td><td>Input</td><td>98.9</td><td>10730984</td><td>N/A</td><td>BI</td></tr><tr><td>64</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD672_i46_A</td><td>Input</td><td>98.8</td><td>11006000</td><td>N/A</td><td>BI</td></tr><tr><td>65</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD601_i43_A</td><td>Input</td><td>98.9</td><td>10390350</td><td>N/A</td><td>BI+Tc</td></tr><tr><td>66</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>CD677_i41_A</td><td>Input</td><td>98.8</td><td>11240383</td><td>N/A</td><td>BI+Tc</td></tr><tr><td>67</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>CD138_i34_A</td><td>H3K9me3</td><td>96.8</td><td>5320153</td><td>CD136_i17_A</td><td></td></tr><tr><td>68</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>CD137_i19_A</td><td>hH3</td><td>99.1</td><td>7581904</td><td>CD136_i17_A</td><td></td></tr><tr><td>69</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>CD136_i17_A</td><td>Input</td><td>98.9</td><td>7478362</td><td>N/A</td><td></td></tr><tr><td>70</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD424_i1_A</td><td>GFP</td><td>97.2</td><td>8583286</td><td>CD421_i5_A</td><td></td></tr><tr><td>71</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD435_i19_A</td><td>GFP</td><td>93.1</td><td>7774689</td><td>CD432_i16_A</td><td></td></tr><tr><td>72</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD423_i7_A</td><td>H3K9me3</td><td>97.3</td><td>7300690</td><td>CD421_i5_A</td><td></td></tr><tr><td>73</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD434_i18_A</td><td>H3K9me3</td><td>97.2</td><td>8452778</td><td>CD432_i16_A</td><td></td></tr><tr><td>74</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD422_i6_A</td><td>hH3</td><td>99.0</td><td>8298992</td><td>CD421_i5_A</td><td></td></tr><tr><td>75</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD433_i17_A</td><td>hH3</td><td>98.9</td><td>9519976</td><td>CD432_i16_A</td><td></td></tr><tr><td>76</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD421_i5_A</td><td>Input</td><td>99.0</td><td>8638738</td><td>N/A</td><td></td></tr><tr><td>77</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>CD432_i16_A</td><td>Input</td><td>99.0</td><td>7704419</td><td>N/A</td><td></td></tr><tr><td>78</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD196_i32_A</td><td>H3K9me3</td><td>96.6</td><td>7747370</td><td>CD194_i30_A</td><td></td></tr><tr><td>79</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD438_i22_A</td><td>H3K9me3</td><td>97.0</td><td>8674141</td><td>CD436_i20_A</td><td></td></tr><tr><td>80</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD195_i31_A</td><td>hH3</td><td>98.5</td><td>8368280</td><td>CD194_i30_A</td><td></td></tr><tr><td>81</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD437_i21_A</td><td>hH3</td><td>69.3</td><td>6663839</td><td>CD436_i20_A</td><td></td></tr><tr><td>82</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD194_i30_A</td><td>Input</td><td>98.5</td><td>8488470</td><td>N/A</td><td></td></tr><tr><td>83</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>CD436_i20_A</td><td>Input</td><td>99.1</td><td>9493385</td><td>N/A</td><td></td></tr><tr><td>84</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD428_i12_A</td><td>GFP</td><td>97.8</td><td>6900465</td><td>CD425_i9_A</td><td></td></tr><tr><td>85</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD445_i29_A</td><td>GFP</td><td>98.6</td><td>6917632</td><td>CD442_i26_A</td><td></td></tr><tr><td>86</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD129_i44_A</td><td>H3K9me3</td><td>96.8</td><td>8243938</td><td>CD127_i43_A</td><td></td></tr><tr><td>87</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD444_i28_A</td><td>H3K9me3</td><td>97.2</td><td>8428380</td><td>CD442_i26_A</td><td></td></tr><tr><td>88</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD427_i11_A</td><td>H3K9me3</td><td>97.4</td><td>6846737</td><td>CD425_i9_A</td><td></td></tr><tr><td>89</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD128_i15_A</td><td>hH3</td><td>98.8</td><td>7664057</td><td>CD127_i43_A</td><td></td></tr><tr><td>90</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD426_i10_A</td><td>hH3</td><td>99.1</td><td>7094939</td><td>CD425_i9_A</td><td></td></tr><tr><td>91</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD443_i27_A</td><td>hH3</td><td>97.3</td><td>8516563</td><td>CD442_i26_A</td><td></td></tr><tr><td>92</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD127_i43_A</td><td>Input</td><td>98.8</td><td>8261073</td><td>N/A</td><td></td></tr><tr><td>93</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD442_i26_A</td><td>Input</td><td>99.1</td><td>6015297</td><td>N/A</td><td></td></tr><tr><td>94</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>CD425_i9_A</td><td>Input</td><td>99.1</td><td>7512143</td><td>N/A</td><td></td></tr></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tbody><tr><td>95</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD147_i41_A</td><td>H3K9me3</td><td>97.0</td><td>8337203</td><td>CD145_i39_A</td><td></td></tr><tr><td>96</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD404_i24_A</td><td>H3K9me3</td><td>97.2</td><td>10136955</td><td>CD402_i22_A</td><td></td></tr><tr><td>97</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD403_i23_A</td><td>hH3</td><td>99.0</td><td>9258535</td><td>CD402_i22_A</td><td></td></tr><tr><td>98</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD762_i32_A</td><td>hH3</td><td>98.4</td><td>8957878</td><td>CD145_i39_A</td><td></td></tr><tr><td>99</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD145_i39_A</td><td>Input</td><td>97.8</td><td>8378515</td><td>N/A</td><td></td></tr><tr><td>100</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD402_i22_A</td><td>Input</td><td>98.9</td><td>9409013</td><td>N/A</td><td></td></tr><tr><td>101</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD186_i24_A</td><td>H3K9me3</td><td>96.5</td><td>9324486</td><td>CD184_i22_A</td><td></td></tr><tr><td>102</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD407_i27_A</td><td>H3K9me3</td><td>97.1</td><td>9284593</td><td>CD405_i25_A</td><td></td></tr><tr><td>103</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD185_i23_A</td><td>hH3</td><td>98.5</td><td>8814243</td><td>CD184_i22_A</td><td></td></tr><tr><td>104</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD406_i26_A</td><td>hH3</td><td>99.0</td><td>8800775</td><td>CD405_i25_A</td><td></td></tr><tr><td>105</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD184_i22_A</td><td>Input</td><td>98.5</td><td>9206043</td><td>N/A</td><td></td></tr><tr><td>106</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD405_i25_A</td><td>Input</td><td>99.0</td><td>9393715</td><td>N/A</td><td></td></tr><tr><td>107</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD377_i48_A</td><td>H3K9me3</td><td>95.6</td><td>6482608</td><td>CD375_i47_A</td><td></td></tr><tr><td>108</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD448_i32_A</td><td>H3K9me3</td><td>97.2</td><td>7149877</td><td>CD446_i30_A</td><td></td></tr><tr><td>109</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD376_i29_A</td><td>hH3</td><td>98.3</td><td>8275565</td><td>CD375_i47_A</td><td></td></tr><tr><td>110</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD447_i31_A</td><td>hH3</td><td>99.0</td><td>7456714</td><td>CD446_i30_A</td><td></td></tr><tr><td>111</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD375_i47_A</td><td>Input</td><td>98.7</td><td>7137760</td><td>N/A</td><td></td></tr><tr><td>112</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD446_i30_A</td><td>Input</td><td>99.1</td><td>7804782</td><td>N/A</td><td></td></tr><tr><td>113</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD458_i42_A</td><td>GFP</td><td>98.5</td><td>9891388</td><td>CD454_i38_A</td><td>Tc</td></tr><tr><td>114</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD632_i6_A</td><td>GFP</td><td>98.8</td><td>8444453</td><td>CD629_i9_A</td><td>Tc</td></tr><tr><td>115</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD262_i43_A</td><td>GFP</td><td>93.1</td><td>7346354</td><td>CD259_i40_A</td><td></td></tr><tr><td>116</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD401_i21_A</td><td>GFP</td><td>98.2</td><td>8513589</td><td>CD398_i18_A</td><td></td></tr><tr><td>117</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD456_i40_A</td><td>H3K9me3</td><td>98.1</td><td>10193635</td><td>CD454_i38_A</td><td>Tc</td></tr><tr><td>118</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD631_i7_A</td><td>H3K9me3</td><td>97.4</td><td>9147582</td><td>CD629_i9_A</td><td>Tc</td></tr><tr><td>119</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD261_i42_A</td><td>H3K9me3</td><td>97.0</td><td>8832346</td><td>CD259_i40_A</td><td></td></tr><tr><td>120</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD400_i20_A</td><td>H3K9me3</td><td>97.0</td><td>7928262</td><td>CD398_i18_A</td><td></td></tr><tr><td>121</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD736_i31_A</td><td>hH2B</td><td>99.0</td><td>8931671</td><td>CD454_i38_A</td><td>Tc</td></tr><tr><td>122</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD737_i32_A</td><td>hH2B</td><td>98.9</td><td>7844732</td><td>CD629_i9_A</td><td>Tc</td></tr><tr><td>123</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD733_i28_A</td><td>hH2B</td><td>98.9</td><td>9741353</td><td>CD398_i18_A</td><td></td></tr><tr><td>124</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD735_i30_A</td><td>hH2B</td><td>98.8</td><td>9109414</td><td>CD734_i29_A</td><td></td></tr><tr><td>125</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD455_i39_A</td><td>hH3</td><td>99.0</td><td>13205725</td><td>CD454_i38_A</td><td>Tc</td></tr><tr><td>126</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD630_i8_A</td><td>hH3</td><td>98.8</td><td>9219792</td><td>CD629_i9_A</td><td>Tc</td></tr><tr><td>127</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD260_i41_A</td><td>hH3</td><td>98.5</td><td>7870943</td><td>CD259_i40_A</td><td></td></tr><tr><td>128</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD399_i19_A</td><td>hH3</td><td>98.9</td><td>9548072</td><td>CD398_i18_A</td><td></td></tr><tr><td>129</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD454_i38_A</td><td>Input</td><td>99.2</td><td>11323585</td><td>N/A</td><td>Tc</td></tr><tr><td>130</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD629_i9_A</td><td>Input</td><td>99.0</td><td>9775144</td><td>N/A</td><td>Tc</td></tr><tr><td>131</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD259_i40_A</td><td>Input</td><td>98.8</td><td>12084203</td><td>N/A</td><td></td></tr><tr><td>132</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD398_i18_A</td><td>Input</td><td>99.0</td><td>10727138</td><td>N/A</td><td></td></tr><tr><td>133</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD734_i29_A</td><td>Input</td><td>98.8</td><td>8947082</td><td>N/A</td><td></td></tr><tr><td>134</td><td>Strain C</td><td>C290.6</td><td>CD69_i37_A</td><td>H3K9me3</td><td>98.4</td><td>7002290</td><td>CD67_i35_A</td><td></td></tr><tr><td>135</td><td>Strain C</td><td>C290.6</td><td>CD569_i45_A</td><td>H3K9me3</td><td>95.3</td><td>7793367</td><td>CD567_i48_A</td><td></td></tr><tr><td>136</td><td>Strain C</td><td>C290.6</td><td>CD68_i36_A</td><td>hH3</td><td>98.8</td><td>8373074</td><td>CD67_i35_A</td><td></td></tr><tr><td>137</td><td>Strain C</td><td>C290.6</td><td>CD568_i46_A</td><td>hH3</td><td>98.4</td><td>7145823</td><td>CD567_i48_A</td><td></td></tr><tr><td>138</td><td>Strain C</td><td>C290.6</td><td>CD67_i35_A</td><td>Input</td><td>98.4</td><td>8426641</td><td>N/A</td><td></td></tr><tr><td>139</td><td>Strain C</td><td>C290.6</td><td>CD567_i48_A</td><td>Input</td><td>98.5</td><td>8075101</td><td>N/A</td><td></td></tr><tr><td>140</td><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>CD61_i48_A</td><td>H3K9me3</td><td>97.8</td><td>5278648</td><td>CD60_i47_A</td><td></td></tr><tr><td>141</td><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>CD556_i36_A</td><td>H3K9me3</td><td>96.7</td><td>8153045</td><td>CD555_i37_A</td><td></td></tr><tr><td>142</td><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>CD60_i47_A</td><td>Input</td><td>99.3</td><td>6408038</td><td>N/A</td><td></td></tr><tr><td>143</td><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>CD555_i37_A</td><td>Input</td><td>99.0</td><td>9482890</td><td>N/A</td><td></td></tr><tr><td>144</td><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>CD66_i34_A</td><td>H3K9me3</td><td>88.5</td><td>7339481</td><td>CD65_i33_A</td><td></td></tr></tbody></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tbody><tr><td>95</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD147_i41_A</td><td>H3K9me3</td><td>97.0</td><td>8337203</td><td>CD145_i39_A</td><td></td></tr><tr><td>96</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD404_i24_A</td><td>H3K9me3</td><td>97.2</td><td>10136955</td><td>CD402_i22_A</td><td></td></tr><tr><td>97</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD403_i23_A</td><td>hH3</td><td>99.0</td><td>9258535</td><td>CD402_i22_A</td><td></td></tr><tr><td>98</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD762_i32_A</td><td>hH3</td><td>98.4</td><td>8957878</td><td>CD145_i39_A</td><td></td></tr><tr><td>99</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD145_i39_A</td><td>Input</td><td>97.8</td><td>8378515</td><td>N/A</td><td></td></tr><tr><td>100</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>CD402_i22_A</td><td>Input</td><td>98.9</td><td>9409013</td><td>N/A</td><td></td></tr><tr><td>101</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD186_i24_A</td><td>H3K9me3</td><td>96.5</td><td>9324486</td><td>CD184_i22_A</td><td></td></tr><tr><td>102</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD407_i27_A</td><td>H3K9me3</td><td>97.1</td><td>9284593</td><td>CD405_i25_A</td><td></td></tr><tr><td>103</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD185_i23_A</td><td>hH3</td><td>98.5</td><td>8814243</td><td>CD184_i22_A</td><td></td></tr><tr><td>104</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD406_i26_A</td><td>hH3</td><td>99.0</td><td>8800775</td><td>CD405_i25_A</td><td></td></tr><tr><td>105</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD184_i22_A</td><td>Input</td><td>98.5</td><td>9206043</td><td>N/A</td><td></td></tr><tr><td>106</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>CD405_i25_A</td><td>Input</td><td>99.0</td><td>9393715</td><td>N/A</td><td></td></tr><tr><td>107</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD377_i48_A</td><td>H3K9me3</td><td>95.6</td><td>6482608</td><td>CD375_i47_A</td><td></td></tr><tr><td>108</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD448_i32_A</td><td>H3K9me3</td><td>97.2</td><td>7149877</td><td>CD446_i30_A</td><td></td></tr><tr><td>109</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD376_i29_A</td><td>hH3</td><td>98.3</td><td>8275565</td><td>CD375_i47_A</td><td></td></tr><tr><td>110</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD447_i31_A</td><td>hH3</td><td>99.0</td><td>7456714</td><td>CD446_i30_A</td><td></td></tr><tr><td>111</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD375_i47_A</td><td>Input</td><td>98.7</td><td>7137760</td><td>N/A</td><td></td></tr><tr><td>112</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>CD446_i30_A</td><td>Input</td><td>99.1</td><td>7804782</td><td>N/A</td><td></td></tr><tr><td>113</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD458_i42_A</td><td>GFP</td><td>98.5</td><td>9891388</td><td>CD454_i38_A</td><td>Tc</td></tr><tr><td>114</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD632_i6_A</td><td>GFP</td><td>98.8</td><td>8444453</td><td>CD629_i9_A</td><td>Tc</td></tr><tr><td>115</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD262_i43_A</td><td>GFP</td><td>93.1</td><td>7346354</td><td>CD259_i40_A</td><td></td></tr><tr><td>116</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD401_i21_A</td><td>GFP</td><td>98.2</td><td>8513589</td><td>CD398_i18_A</td><td></td></tr><tr><td>117</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD456_i40_A</td><td>H3K9me3</td><td>98.1</td><td>10193635</td><td>CD454_i38_A</td><td>Tc</td></tr><tr><td>118</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD631_i7_A</td><td>H3K9me3</td><td>97.4</td><td>9147582</td><td>CD629_i9_A</td><td>Tc</td></tr><tr><td>119</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD261_i42_A</td><td>H3K9me3</td><td>97.0</td><td>8832346</td><td>CD259_i40_A</td><td></td></tr><tr><td>120</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD400_i20_A</td><td>H3K9me3</td><td>97.0</td><td>7928262</td><td>CD398_i18_A</td><td></td></tr><tr><td>121</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD736_i31_A</td><td>hH2B</td><td>99.0</td><td>8931671</td><td>CD454_i38_A</td><td>Tc</td></tr><tr><td>122</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD737_i32_A</td><td>hH2B</td><td>98.9</td><td>7844732</td><td>CD629_i9_A</td><td>Tc</td></tr><tr><td>123</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD733_i28_A</td><td>hH2B</td><td>98.9</td><td>9741353</td><td>CD398_i18_A</td><td></td></tr><tr><td>124</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD735_i30_A</td><td>hH2B</td><td>98.8</td><td>9109414</td><td>CD734_i29_A</td><td></td></tr><tr><td>125</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD455_i39_A</td><td>hH3</td><td>99.0</td><td>13205725</td><td>CD454_i38_A</td><td>Tc</td></tr><tr><td>126</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD630_i8_A</td><td>hH3</td><td>98.8</td><td>9219792</td><td>CD629_i9_A</td><td>Tc</td></tr><tr><td>127</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD260_i41_A</td><td>hH3</td><td>98.5</td><td>7870943</td><td>CD259_i40_A</td><td></td></tr><tr><td>128</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD399_i19_A</td><td>hH3</td><td>98.9</td><td>9548072</td><td>CD398_i18_A</td><td></td></tr><tr><td>129</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD454_i38_A</td><td>Input</td><td>99.2</td><td>11323585</td><td>N/A</td><td>Tc</td></tr><tr><td>130</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD629_i9_A</td><td>Input</td><td>99.0</td><td>9775144</td><td>N/A</td><td>Tc</td></tr><tr><td>131</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD259_i40_A</td><td>Input</td><td>98.8</td><td>12084203</td><td>N/A</td><td></td></tr><tr><td>132</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD398_i18_A</td><td>Input</td><td>99.0</td><td>10727138</td><td>N/A</td><td></td></tr><tr><td>133</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD734_i29_A</td><td>Input</td><td>98.8</td><td>8947082</td><td>N/A</td><td></td></tr><tr><td>134</td><td>Strain C</td><td>C290.6</td><td>CD69_i37_A</td><td>H3K9me3</td><td>98.4</td><td>7002290</td><td>CD67_i35_A</td><td></td></tr><tr><td>135</td><td>Strain C</td><td>C290.6</td><td>CD569_i45_A</td><td>H3K9me3</td><td>95.3</td><td>7793367</td><td>CD567_i48_A</td><td></td></tr><tr><td>136</td><td>Strain C</td><td>C290.6</td><td>CD68_i36_A</td><td>hH3</td><td>98.8</td><td>8373074</td><td>CD67_i35_A</td><td></td></tr><tr><td>137</td><td>Strain C</td><td>C290.6</td><td>CD568_i46_A</td><td>hH3</td><td>98.4</td><td>7145823</td><td>CD567_i48_A</td><td></td></tr><tr><td>138</td><td>Strain C</td><td>C290.6</td><td>CD67_i35_A</td><td>Input</td><td>98.4</td><td>8426641</td><td>N/A</td><td></td></tr><tr><td>139</td><td>Strain C</td><td>C290.6</td><td>CD567_i48_A</td><td>Input</td><td>98.5</td><td>8075101</td><td>N/A</td><td></td></tr><tr><td>140</td><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>CD61_i48_A</td><td>H3K9me3</td><td>97.8</td><td>5278648</td><td>CD60_i47_A</td><td></td></tr><tr><td>141</td><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>CD556_i36_A</td><td>H3K9me3</td><td>96.7</td><td>8153045</td><td>CD555_i37_A</td><td></td></tr><tr><td>142</td><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>CD60_i47_A</td><td>Input</td><td>99.3</td><td>6408038</td><td>N/A</td><td></td></tr><tr><td>143</td><td>Strain C::lacO(d1); dim-5+</td><td>T697.1</td><td>CD555_i37_A</td><td>Input</td><td>99.0</td><td>9482890</td><td>N/A</td><td></td></tr><tr><td>144</td><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>CD66_i34_A</td><td>H3K9me3</td><td>88.5</td><td>7339481</td><td>CD65_i33_A</td><td></td></tr></tbody></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tr><td>145</td><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>CD558_i34_A</td><td>H3K9me3</td><td>96.5</td><td>6864519</td><td>CD557_i35_A</td><td></td></tr><tr><td>146</td><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>CD65_i33_A</td><td>Input</td><td>99.4</td><td>8631930</td><td>N/A</td><td></td></tr><tr><td>147</td><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>CD557_i35_A</td><td>Input</td><td>98.9</td><td>8147564</td><td>N/A</td><td></td></tr><tr><td>148</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD40_i27_A</td><td>H3K9me3</td><td>97.8</td><td>10427164</td><td>CD38_i25_A</td><td></td></tr><tr><td>149</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD769_i38_A</td><td>H3K9me3</td><td>95.0</td><td>9142215</td><td>CD294_i25_A</td><td></td></tr><tr><td>150</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD39_i26_A</td><td>hH3</td><td>99.0</td><td>7942226</td><td>CD38_i25_A</td><td></td></tr><tr><td>151</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD768_i37_A</td><td>hH3</td><td>98.9</td><td>10418247</td><td>CD294_i25_A</td><td></td></tr><tr><td>152</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD38_i25_A</td><td>Input</td><td>99.2</td><td>6976064</td><td>N/A</td><td></td></tr><tr><td>153</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD294_i25_A</td><td>Input</td><td>98.4</td><td>9361089</td><td>N/A</td><td></td></tr><tr><td>154</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>CD830_i29_A</td><td>hH3</td><td>98.7</td><td>8808509</td><td>CD829_i28_A</td><td></td></tr><tr><td>155</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>CD829_i28_A</td><td>Input</td><td>98.7</td><td>10053671</td><td>N/A</td><td></td></tr><tr><td>156</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD49_i36_A</td><td>H3K9me3</td><td>97.5</td><td>9337383</td><td>CD47_i34_A</td><td></td></tr><tr><td>157</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD579_i33_A</td><td>H3K9me3</td><td>97.2</td><td>8135547</td><td>CD577_i35_A</td><td></td></tr><tr><td>158</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD48_i35_A</td><td>hH3</td><td>99.2</td><td>8855879</td><td>CD47_i34_A</td><td></td></tr><tr><td>159</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD578_i34_A</td><td>hH3</td><td>98.6</td><td>7111554</td><td>CD577_i35_A</td><td></td></tr><tr><td>160</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD47_i34_A</td><td>Input</td><td>99.1</td><td>6600607</td><td>N/A</td><td></td></tr><tr><td>161</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD577_i35_A</td><td>Input</td><td>92.5</td><td>7972673</td><td>N/A</td><td></td></tr><tr><td>162</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD43_i30_A</td><td>H3K9me3</td><td>98.3</td><td>6777728</td><td>CD41_i28_A</td><td></td></tr><tr><td>163</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD573_i40_A</td><td>H3K9me3</td><td>94.2</td><td>8595604</td><td>CD571_i43_A</td><td></td></tr><tr><td>164</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD42_i29_A</td><td>hH3</td><td>99.2</td><td>11718495</td><td>CD41_i28_A</td><td></td></tr><tr><td>165</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD572_i41_A</td><td>hH3</td><td>98.5</td><td>7047100</td><td>CD571_i43_A</td><td></td></tr><tr><td>166</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD41_i28_A</td><td>Input</td><td>99.1</td><td>8792743</td><td>N/A</td><td></td></tr><tr><td>167</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD571_i43_A</td><td>Input</td><td>98.6</td><td>8428865</td><td>N/A</td><td></td></tr><tr><td>168</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD46_i33_A</td><td>H3K9me3</td><td>98.4</td><td>8255276</td><td>CD44_i31_A</td><td></td></tr><tr><td>169</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD576_i36_A</td><td>H3K9me3</td><td>96.9</td><td>9271303</td><td>CD574_i39_A</td><td></td></tr><tr><td>170</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD45_i32_A</td><td>hH3</td><td>99.2</td><td>9513255</td><td>CD44_i31_A</td><td></td></tr><tr><td>171</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD575_i38_A</td><td>hH3</td><td>98.8</td><td>9986908</td><td>CD574_i39_A</td><td></td></tr><tr><td>172</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD44_i31_A</td><td>Input</td><td>99.2</td><td>6616746</td><td>N/A</td><td></td></tr><tr><td>173</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD574_i39_A</td><td>Input</td><td>98.5</td><td>10005228</td><td>N/A</td><td></td></tr><tr><td>174</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>CD135_i48_A</td><td>H3K9me3</td><td>97.1</td><td>6833539</td><td>CD133_i47_A</td><td></td></tr><tr><td>175</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>CD134_i18_A</td><td>hH3</td><td>98.9</td><td>8831960</td><td>CD133_i47_A</td><td></td></tr><tr><td>176</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>CD133_i47_A</td><td>Input</td><td>98.9</td><td>6330925</td><td>N/A</td><td></td></tr><tr><td>177</td><td>Strain E</td><td>T601.2h</td><td>CD848_i36_A</td><td>H3K9me3</td><td>93.7</td><td>8643593</td><td>CD845_i33_A</td><td>"maintained"</td></tr><tr><td>178</td><td>Strain E</td><td>T601.2h</td><td>CD844_i42_A</td><td>H3K9me3</td><td>96.6</td><td>7761265</td><td>CD843_i41_A</td><td>"released"</td></tr><tr><td>179</td><td>Strain E</td><td>T601.2h</td><td>CD852_i4_A</td><td>H3K9me3</td><td>92.3</td><td>8634000</td><td>CD849_i1_A</td><td>"released"</td></tr><tr><td>180</td><td>Strain E</td><td>T601.2h</td><td>CD655_i37_A</td><td>H3K9me3</td><td>98.1</td><td>8476509</td><td>CD653_i35_A</td><td>no-N</td></tr><tr><td>181</td><td>Strain E</td><td>T601.2h</td><td>CD750_i25_A</td><td>H3K9me3</td><td>97.4</td><td>8908047</td><td>CD723_i18_A</td><td>no-N</td></tr><tr><td>182</td><td>Strain E</td><td>T601.2h</td><td>CD75_i43_A</td><td>H3K9me3</td><td>97.5</td><td>7793876</td><td>CD73_i41_A</td><td></td></tr><tr><td>183</td><td>Strain E</td><td>T601.2h</td><td>CD652_i34_A</td><td>H3K9me3</td><td>98.5</td><td>8145259</td><td>CD650_i32_A</td><td></td></tr><tr><td>184</td><td>Strain E</td><td>T601.2h</td><td>CD741_i36_A</td><td>hH2B</td><td>98.8</td><td>10530685</td><td>CD723_i18_A</td><td>no-N</td></tr><tr><td>185</td><td>Strain E</td><td>T601.2h</td><td>CD740_i35_A</td><td>hH2B</td><td>98.9</td><td>8585096</td><td>CD697_i24_A</td><td>no-N</td></tr><tr><td>186</td><td>Strain E</td><td>T601.2h</td><td>CD738_i33_A</td><td>hH2B</td><td>98.8</td><td>9637627</td><td>CD650_i32_A</td><td></td></tr><tr><td>187</td><td>Strain E</td><td>T601.2h</td><td>CD739_i34_A</td><td>hH2B</td><td>99.0</td><td>8700628</td><td>CD721_i16_A</td><td></td></tr><tr><td>188</td><td>Strain E</td><td>T601.2h</td><td>CD654_i36_A</td><td>hH3</td><td>96.3</td><td>7792030</td><td>CD653_i35_A</td><td>no-N</td></tr><tr><td>189</td><td>Strain E</td><td>T601.2h</td><td>CD698_i23_A</td><td>hH3</td><td>98.6</td><td>8852422</td><td>CD697_i24_A</td><td>no-N</td></tr><tr><td>190</td><td>Strain E</td><td>T601.2h</td><td>CD74_i42_A</td><td>hH3</td><td>99.1</td><td>8816753</td><td>CD73_i41_A</td><td></td></tr><tr><td>191</td><td>Strain E</td><td>T601.2h</td><td>CD651_i33_A</td><td>hH3</td><td>99.1</td><td>8817367</td><td>CD650_i32_A</td><td></td></tr><tr><td>192</td><td>Strain E</td><td>T601.2h</td><td>CD845_i33_A</td><td>Input</td><td>99.1</td><td>9926094</td><td>N/A</td><td>"maintained"</td></tr><tr><td>193</td><td>Strain E</td><td>T601.2h</td><td>CD843_i41_A</td><td>Input</td><td>98.9</td><td>9427679</td><td>N/A</td><td>"released"</td></tr><tr><td>194</td><td>Strain E</td><td>T601.2h</td><td>CD849_i1_A</td><td>Input</td><td>99.0</td><td>9054557</td><td>N/A</td><td>"released"</td></tr></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tr><td>145</td><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>CD558_i34_A</td><td>H3K9me3</td><td>96.5</td><td>6864519</td><td>CD557_i35_A</td><td></td></tr><tr><td>146</td><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>CD65_i33_A</td><td>Input</td><td>99.4</td><td>8631930</td><td>N/A</td><td></td></tr><tr><td>147</td><td>Strain C::lacO(d2); dim-5+</td><td>T698.1</td><td>CD557_i35_A</td><td>Input</td><td>98.9</td><td>8147564</td><td>N/A</td><td></td></tr><tr><td>148</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD40_i27_A</td><td>H3K9me3</td><td>97.8</td><td>10427164</td><td>CD38_i25_A</td><td></td></tr><tr><td>149</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD769_i38_A</td><td>H3K9me3</td><td>95.0</td><td>9142215</td><td>CD294_i25_A</td><td></td></tr><tr><td>150</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD39_i26_A</td><td>hH3</td><td>99.0</td><td>7942226</td><td>CD38_i25_A</td><td></td></tr><tr><td>151</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD768_i37_A</td><td>hH3</td><td>98.9</td><td>10418247</td><td>CD294_i25_A</td><td></td></tr><tr><td>152</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD38_i25_A</td><td>Input</td><td>99.2</td><td>6976064</td><td>N/A</td><td></td></tr><tr><td>153</td><td>Strain C::dim-5+</td><td>T663.2</td><td>CD294_i25_A</td><td>Input</td><td>98.4</td><td>9361089</td><td>N/A</td><td></td></tr><tr><td>154</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>CD830_i29_A</td><td>hH3</td><td>98.7</td><td>8808509</td><td>CD829_i28_A</td><td></td></tr><tr><td>155</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>CD829_i28_A</td><td>Input</td><td>98.7</td><td>10053671</td><td>N/A</td><td></td></tr><tr><td>156</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD49_i36_A</td><td>H3K9me3</td><td>97.5</td><td>9337383</td><td>CD47_i34_A</td><td></td></tr><tr><td>157</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD579_i33_A</td><td>H3K9me3</td><td>97.2</td><td>8135547</td><td>CD577_i35_A</td><td></td></tr><tr><td>158</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD48_i35_A</td><td>hH3</td><td>99.2</td><td>8855879</td><td>CD47_i34_A</td><td></td></tr><tr><td>159</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD578_i34_A</td><td>hH3</td><td>98.6</td><td>7111554</td><td>CD577_i35_A</td><td></td></tr><tr><td>160</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD47_i34_A</td><td>Input</td><td>99.1</td><td>6600607</td><td>N/A</td><td></td></tr><tr><td>161</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>CD577_i35_A</td><td>Input</td><td>92.5</td><td>7972673</td><td>N/A</td><td></td></tr><tr><td>162</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD43_i30_A</td><td>H3K9me3</td><td>98.3</td><td>6777728</td><td>CD41_i28_A</td><td></td></tr><tr><td>163</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD573_i40_A</td><td>H3K9me3</td><td>94.2</td><td>8595604</td><td>CD571_i43_A</td><td></td></tr><tr><td>164</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD42_i29_A</td><td>hH3</td><td>99.2</td><td>11718495</td><td>CD41_i28_A</td><td></td></tr><tr><td>165</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD572_i41_A</td><td>hH3</td><td>98.5</td><td>7047100</td><td>CD571_i43_A</td><td></td></tr><tr><td>166</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD41_i28_A</td><td>Input</td><td>99.1</td><td>8792743</td><td>N/A</td><td></td></tr><tr><td>167</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>CD571_i43_A</td><td>Input</td><td>98.6</td><td>8428865</td><td>N/A</td><td></td></tr><tr><td>168</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD46_i33_A</td><td>H3K9me3</td><td>98.4</td><td>8255276</td><td>CD44_i31_A</td><td></td></tr><tr><td>169</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD576_i36_A</td><td>H3K9me3</td><td>96.9</td><td>9271303</td><td>CD574_i39_A</td><td></td></tr><tr><td>170</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD45_i32_A</td><td>hH3</td><td>99.2</td><td>9513255</td><td>CD44_i31_A</td><td></td></tr><tr><td>171</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD575_i38_A</td><td>hH3</td><td>98.8</td><td>9986908</td><td>CD574_i39_A</td><td></td></tr><tr><td>172</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD44_i31_A</td><td>Input</td><td>99.2</td><td>6616746</td><td>N/A</td><td></td></tr><tr><td>173</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>CD574_i39_A</td><td>Input</td><td>98.5</td><td>10005228</td><td>N/A</td><td></td></tr><tr><td>174</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>CD135_i48_A</td><td>H3K9me3</td><td>97.1</td><td>6833539</td><td>CD133_i47_A</td><td></td></tr><tr><td>175</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>CD134_i18_A</td><td>hH3</td><td>98.9</td><td>8831960</td><td>CD133_i47_A</td><td></td></tr><tr><td>176</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>CD133_i47_A</td><td>Input</td><td>98.9</td><td>6330925</td><td>N/A</td><td></td></tr><tr><td>177</td><td>Strain E</td><td>T601.2h</td><td>CD848_i36_A</td><td>H3K9me3</td><td>93.7</td><td>8643593</td><td>CD845_i33_A</td><td>"maintained"</td></tr><tr><td>178</td><td>Strain E</td><td>T601.2h</td><td>CD844_i42_A</td><td>H3K9me3</td><td>96.6</td><td>7761265</td><td>CD843_i41_A</td><td>"released"</td></tr><tr><td>179</td><td>Strain E</td><td>T601.2h</td><td>CD852_i4_A</td><td>H3K9me3</td><td>92.3</td><td>8634000</td><td>CD849_i1_A</td><td>"released"</td></tr><tr><td>180</td><td>Strain E</td><td>T601.2h</td><td>CD655_i37_A</td><td>H3K9me3</td><td>98.1</td><td>8476509</td><td>CD653_i35_A</td><td>no-N</td></tr><tr><td>181</td><td>Strain E</td><td>T601.2h</td><td>CD750_i25_A</td><td>H3K9me3</td><td>97.4</td><td>8908047</td><td>CD723_i18_A</td><td>no-N</td></tr><tr><td>182</td><td>Strain E</td><td>T601.2h</td><td>CD75_i43_A</td><td>H3K9me3</td><td>97.5</td><td>7793876</td><td>CD73_i41_A</td><td></td></tr><tr><td>183</td><td>Strain E</td><td>T601.2h</td><td>CD652_i34_A</td><td>H3K9me3</td><td>98.5</td><td>8145259</td><td>CD650_i32_A</td><td></td></tr><tr><td>184</td><td>Strain E</td><td>T601.2h</td><td>CD741_i36_A</td><td>hH2B</td><td>98.8</td><td>10530685</td><td>CD723_i18_A</td><td>no-N</td></tr><tr><td>185</td><td>Strain E</td><td>T601.2h</td><td>CD740_i35_A</td><td>hH2B</td><td>98.9</td><td>8585096</td><td>CD697_i24_A</td><td>no-N</td></tr><tr><td>186</td><td>Strain E</td><td>T601.2h</td><td>CD738_i33_A</td><td>hH2B</td><td>98.8</td><td>9637627</td><td>CD650_i32_A</td><td></td></tr><tr><td>187</td><td>Strain E</td><td>T601.2h</td><td>CD739_i34_A</td><td>hH2B</td><td>99.0</td><td>8700628</td><td>CD721_i16_A</td><td></td></tr><tr><td>188</td><td>Strain E</td><td>T601.2h</td><td>CD654_i36_A</td><td>hH3</td><td>96.3</td><td>7792030</td><td>CD653_i35_A</td><td>no-N</td></tr><tr><td>189</td><td>Strain E</td><td>T601.2h</td><td>CD698_i23_A</td><td>hH3</td><td>98.6</td><td>8852422</td><td>CD697_i24_A</td><td>no-N</td></tr><tr><td>190</td><td>Strain E</td><td>T601.2h</td><td>CD74_i42_A</td><td>hH3</td><td>99.1</td><td>8816753</td><td>CD73_i41_A</td><td></td></tr><tr><td>191</td><td>Strain E</td><td>T601.2h</td><td>CD651_i33_A</td><td>hH3</td><td>99.1</td><td>8817367</td><td>CD650_i32_A</td><td></td></tr><tr><td>192</td><td>Strain E</td><td>T601.2h</td><td>CD845_i33_A</td><td>Input</td><td>99.1</td><td>9926094</td><td>N/A</td><td>"maintained"</td></tr><tr><td>193</td><td>Strain E</td><td>T601.2h</td><td>CD843_i41_A</td><td>Input</td><td>98.9</td><td>9427679</td><td>N/A</td><td>"released"</td></tr><tr><td>194</td><td>Strain E</td><td>T601.2h</td><td>CD849_i1_A</td><td>Input</td><td>99.0</td><td>9054557</td><td>N/A</td><td>"released"</td></tr></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tbody><tr><td>195</td><td>Strain E</td><td>T601.2h</td><td>CD723_i18_A</td><td>Input</td><td>99.0</td><td>9226469</td><td>N/A</td><td>no-N</td></tr><tr><td>196</td><td>Strain E</td><td>T601.2h</td><td>CD697_i24_A</td><td>Input</td><td>99.0</td><td>8445763</td><td>N/A</td><td>no-N</td></tr><tr><td>197</td><td>Strain E</td><td>T601.2h</td><td>CD653_i35_A</td><td>Input</td><td>99.0</td><td>9196543</td><td>N/A</td><td>no-N</td></tr><tr><td>198</td><td>Strain E</td><td>T601.2h</td><td>CD650_i32_A</td><td>Input</td><td>98.6</td><td>9355163</td><td>N/A</td><td></td></tr><tr><td>199</td><td>Strain E</td><td>T601.2h</td><td>CD721_i16_A</td><td>Input</td><td>98.9</td><td>11369712</td><td>N/A</td><td></td></tr><tr><td>200</td><td>Strain E</td><td>T601.2h</td><td>CD73_i41_A</td><td>Input</td><td>98.0</td><td>9209709</td><td>N/A</td><td></td></tr><tr><td>201</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD190_i28_A</td><td>H3K9me3</td><td>96.8</td><td>8798934</td><td>CD188_i26_A</td><td></td></tr><tr><td>202</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD614_i30_A</td><td>H3K9me3</td><td>97.4</td><td>7039957</td><td>CD612_i32_A</td><td></td></tr><tr><td>203</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD189_i27_A</td><td>hH3</td><td>98.5</td><td>8198700</td><td>CD188_i26_A</td><td></td></tr><tr><td>204</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD613_i31_A</td><td>hH3</td><td>99.0</td><td>9640803</td><td>CD612_i32_A</td><td></td></tr><tr><td>205</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD188_i26_A</td><td>Input</td><td>98.6</td><td>7988786</td><td>N/A</td><td></td></tr><tr><td>206</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD612_i32_A</td><td>Input</td><td>98.9</td><td>11275351</td><td>N/A</td><td></td></tr><tr><td>207</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD667_i48_A</td><td>H3K9me3</td><td>98.4</td><td>8032158</td><td>CD665_i46_A</td><td>no-N</td></tr><tr><td>208</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD690_i28_A</td><td>H3K9me3</td><td>96.3</td><td>9369072</td><td>CD688_i30_A</td><td>no-N</td></tr><tr><td>209</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD666_i47_A</td><td>hH3</td><td>98.4</td><td>9158422</td><td>CD665_i46_A</td><td>no-N</td></tr><tr><td>210</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD689_i29_A</td><td>hH3</td><td>98.4</td><td>9083438</td><td>CD688_i30_A</td><td>no-N</td></tr><tr><td>211</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD665_i46_A</td><td>Input</td><td>99.1</td><td>10457276</td><td>N/A</td><td>no-N</td></tr><tr><td>212</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD688_i30_A</td><td>Input</td><td>98.9</td><td>9823600</td><td>N/A</td><td>no-N</td></tr><tr><td>213</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD608_i35_A</td><td>H3K9me3</td><td>88.5</td><td>10022605</td><td>CD606_i36_A</td><td>no-N</td></tr><tr><td>214</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD711_i6_A</td><td>H3K9me3</td><td>98.2</td><td>6636860</td><td>CD709_i4_A</td><td>no-N</td></tr><tr><td>215</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD607_i27_A</td><td>hH3</td><td>98.6</td><td>9631010</td><td>CD606_i36_A</td><td>no-N</td></tr><tr><td>216</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD710_i5_A</td><td>hH3</td><td>98.8</td><td>8712589</td><td>CD709_i4_A</td><td>no-N</td></tr><tr><td>217</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD606_i36_A</td><td>Input</td><td>98.9</td><td>12868225</td><td>N/A</td><td>no-N</td></tr><tr><td>218</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD709_i4_A</td><td>Input</td><td>99.2</td><td>8851401</td><td>N/A</td><td>no-N</td></tr><tr><td>219</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD611_i33_A</td><td>H3K9me3</td><td>97.7</td><td>10392870</td><td>CD609_i34_A</td><td>no-N</td></tr><tr><td>220</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD752_i26_A</td><td>H3K9me3</td><td>97.7</td><td>9109045</td><td>CD715_i10_A</td><td>no-N</td></tr><tr><td>221</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD610_i26_A</td><td>hH3</td><td>86.9</td><td>7683121</td><td>CD609_i34_A</td><td>no-N</td></tr><tr><td>222</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD716_i11_A</td><td>hH3</td><td>99.0</td><td>7553969</td><td>CD715_i10_A</td><td>no-N</td></tr><tr><td>223</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD715_i10_A</td><td>Input</td><td>99.2</td><td>9094349</td><td>N/A</td><td>no-N</td></tr><tr><td>224</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD609_i34_A</td><td>Input</td><td>99.1</td><td>10277658</td><td>N/A</td><td>no-N</td></tr><tr><td>225</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD708_i3_A</td><td>H3K9me3</td><td>77.4</td><td>5436037</td><td>CD706_i1_A</td><td>no-N</td></tr><tr><td>226</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD754_i27_A</td><td>H3K9me3</td><td>97.8</td><td>8943634</td><td>CD700_i21_A</td><td>no-N</td></tr><tr><td>227</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD701_i20_A</td><td>hH3</td><td>99.0</td><td>9300497</td><td>CD700_i21_A</td><td>no-N</td></tr><tr><td>228</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD707_i2_A</td><td>hH3</td><td>97.7</td><td>8549931</td><td>CD706_i1_A</td><td>no-N</td></tr><tr><td>229</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD700_i21_A</td><td>Input</td><td>99.0</td><td>10417937</td><td>N/A</td><td>no-N</td></tr><tr><td>230</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD706_i1_A</td><td>Input</td><td>99.1</td><td>7828349</td><td>N/A</td><td>no-N</td></tr><tr><td>231</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD714_i9_A</td><td>H3K9me3</td><td>97.0</td><td>7071655</td><td>CD712_i7_A</td><td>no-N</td></tr><tr><td>232</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD756_i28_A</td><td>H3K9me3</td><td>97.7</td><td>9872070</td><td>CD703_i18_A</td><td>no-N</td></tr><tr><td>233</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD704_i17_A</td><td>hH3</td><td>98.5</td><td>9440003</td><td>CD703_i18_A</td><td>no-N</td></tr><tr><td>234</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD713_i8_A</td><td>hH3</td><td>98.8</td><td>7385596</td><td>CD712_i7_A</td><td>no-N</td></tr><tr><td>235</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD703_i18_A</td><td>Input</td><td>99.0</td><td>8137387</td><td>N/A</td><td>no-N</td></tr><tr><td>236</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD712_i7_A</td><td>Input</td><td>99.0</td><td>8000728</td><td>N/A</td><td>no-N</td></tr><tr><td>237</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD658_i40_A</td><td>H3K9me3</td><td>97.7</td><td>9927567</td><td>CD656_i38_A</td><td>no-N</td></tr><tr><td>238</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD687_i31_A</td><td>H3K9me3</td><td>96.5</td><td>9708825</td><td>CD685_i33_A</td><td>no-N</td></tr><tr><td>239</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD745_i40_A</td><td>hH2B</td><td>98.9</td><td>7706122</td><td>CD685_i33_A</td><td>no-N</td></tr><tr><td>240</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD746_i41_A</td><td>hH2B</td><td>98.7</td><td>7986318</td><td>CD727_i22_A</td><td>no-N</td></tr><tr><td>241</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD742_i37_A</td><td>hH2B</td><td>99.0</td><td>10163595</td><td>CD725_i20_A</td><td></td></tr><tr><td>242</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD744_i39_A</td><td>hH2B</td><td>98.8</td><td>9149919</td><td>CD743_i38_A</td><td></td></tr><tr><td>243</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD657_i39_A</td><td>hH3</td><td>98.5</td><td>9787164</td><td>CD656_i38_A</td><td>no-N</td></tr><tr><td>244</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD686_i32_A</td><td>hH3</td><td>98.5</td><td>9187849</td><td>CD685_i33_A</td><td>no-N</td></tr></tbody></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tbody><tr><td>195</td><td>Strain E</td><td>T601.2h</td><td>CD723_i18_A</td><td>Input</td><td>99.0</td><td>9226469</td><td>N/A</td><td>no-N</td></tr><tr><td>196</td><td>Strain E</td><td>T601.2h</td><td>CD697_i24_A</td><td>Input</td><td>99.0</td><td>8445763</td><td>N/A</td><td>no-N</td></tr><tr><td>197</td><td>Strain E</td><td>T601.2h</td><td>CD653_i35_A</td><td>Input</td><td>99.0</td><td>9196543</td><td>N/A</td><td>no-N</td></tr><tr><td>198</td><td>Strain E</td><td>T601.2h</td><td>CD650_i32_A</td><td>Input</td><td>98.6</td><td>9355163</td><td>N/A</td><td></td></tr><tr><td>199</td><td>Strain E</td><td>T601.2h</td><td>CD721_i16_A</td><td>Input</td><td>98.9</td><td>11369712</td><td>N/A</td><td></td></tr><tr><td>200</td><td>Strain E</td><td>T601.2h</td><td>CD73_i41_A</td><td>Input</td><td>98.0</td><td>9209709</td><td>N/A</td><td></td></tr><tr><td>201</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD190_i28_A</td><td>H3K9me3</td><td>96.8</td><td>8798934</td><td>CD188_i26_A</td><td></td></tr><tr><td>202</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD614_i30_A</td><td>H3K9me3</td><td>97.4</td><td>7039957</td><td>CD612_i32_A</td><td></td></tr><tr><td>203</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD189_i27_A</td><td>hH3</td><td>98.5</td><td>8198700</td><td>CD188_i26_A</td><td></td></tr><tr><td>204</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD613_i31_A</td><td>hH3</td><td>99.0</td><td>9640803</td><td>CD612_i32_A</td><td></td></tr><tr><td>205</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD188_i26_A</td><td>Input</td><td>98.6</td><td>7988786</td><td>N/A</td><td></td></tr><tr><td>206</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>CD612_i32_A</td><td>Input</td><td>98.9</td><td>11275351</td><td>N/A</td><td></td></tr><tr><td>207</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD667_i48_A</td><td>H3K9me3</td><td>98.4</td><td>8032158</td><td>CD665_i46_A</td><td>no-N</td></tr><tr><td>208</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD690_i28_A</td><td>H3K9me3</td><td>96.3</td><td>9369072</td><td>CD688_i30_A</td><td>no-N</td></tr><tr><td>209</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD666_i47_A</td><td>hH3</td><td>98.4</td><td>9158422</td><td>CD665_i46_A</td><td>no-N</td></tr><tr><td>210</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD689_i29_A</td><td>hH3</td><td>98.4</td><td>9083438</td><td>CD688_i30_A</td><td>no-N</td></tr><tr><td>211</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD665_i46_A</td><td>Input</td><td>99.1</td><td>10457276</td><td>N/A</td><td>no-N</td></tr><tr><td>212</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>CD688_i30_A</td><td>Input</td><td>98.9</td><td>9823600</td><td>N/A</td><td>no-N</td></tr><tr><td>213</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD608_i35_A</td><td>H3K9me3</td><td>88.5</td><td>10022605</td><td>CD606_i36_A</td><td>no-N</td></tr><tr><td>214</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD711_i6_A</td><td>H3K9me3</td><td>98.2</td><td>6636860</td><td>CD709_i4_A</td><td>no-N</td></tr><tr><td>215</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD607_i27_A</td><td>hH3</td><td>98.6</td><td>9631010</td><td>CD606_i36_A</td><td>no-N</td></tr><tr><td>216</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD710_i5_A</td><td>hH3</td><td>98.8</td><td>8712589</td><td>CD709_i4_A</td><td>no-N</td></tr><tr><td>217</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD606_i36_A</td><td>Input</td><td>98.9</td><td>12868225</td><td>N/A</td><td>no-N</td></tr><tr><td>218</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>CD709_i4_A</td><td>Input</td><td>99.2</td><td>8851401</td><td>N/A</td><td>no-N</td></tr><tr><td>219</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD611_i33_A</td><td>H3K9me3</td><td>97.7</td><td>10392870</td><td>CD609_i34_A</td><td>no-N</td></tr><tr><td>220</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD752_i26_A</td><td>H3K9me3</td><td>97.7</td><td>9109045</td><td>CD715_i10_A</td><td>no-N</td></tr><tr><td>221</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD610_i26_A</td><td>hH3</td><td>86.9</td><td>7683121</td><td>CD609_i34_A</td><td>no-N</td></tr><tr><td>222</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD716_i11_A</td><td>hH3</td><td>99.0</td><td>7553969</td><td>CD715_i10_A</td><td>no-N</td></tr><tr><td>223</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD715_i10_A</td><td>Input</td><td>99.2</td><td>9094349</td><td>N/A</td><td>no-N</td></tr><tr><td>224</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>CD609_i34_A</td><td>Input</td><td>99.1</td><td>10277658</td><td>N/A</td><td>no-N</td></tr><tr><td>225</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD708_i3_A</td><td>H3K9me3</td><td>77.4</td><td>5436037</td><td>CD706_i1_A</td><td>no-N</td></tr><tr><td>226</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD754_i27_A</td><td>H3K9me3</td><td>97.8</td><td>8943634</td><td>CD700_i21_A</td><td>no-N</td></tr><tr><td>227</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD701_i20_A</td><td>hH3</td><td>99.0</td><td>9300497</td><td>CD700_i21_A</td><td>no-N</td></tr><tr><td>228</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD707_i2_A</td><td>hH3</td><td>97.7</td><td>8549931</td><td>CD706_i1_A</td><td>no-N</td></tr><tr><td>229</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD700_i21_A</td><td>Input</td><td>99.0</td><td>10417937</td><td>N/A</td><td>no-N</td></tr><tr><td>230</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>CD706_i1_A</td><td>Input</td><td>99.1</td><td>7828349</td><td>N/A</td><td>no-N</td></tr><tr><td>231</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD714_i9_A</td><td>H3K9me3</td><td>97.0</td><td>7071655</td><td>CD712_i7_A</td><td>no-N</td></tr><tr><td>232</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD756_i28_A</td><td>H3K9me3</td><td>97.7</td><td>9872070</td><td>CD703_i18_A</td><td>no-N</td></tr><tr><td>233</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD704_i17_A</td><td>hH3</td><td>98.5</td><td>9440003</td><td>CD703_i18_A</td><td>no-N</td></tr><tr><td>234</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD713_i8_A</td><td>hH3</td><td>98.8</td><td>7385596</td><td>CD712_i7_A</td><td>no-N</td></tr><tr><td>235</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD703_i18_A</td><td>Input</td><td>99.0</td><td>8137387</td><td>N/A</td><td>no-N</td></tr><tr><td>236</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>CD712_i7_A</td><td>Input</td><td>99.0</td><td>8000728</td><td>N/A</td><td>no-N</td></tr><tr><td>237</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD658_i40_A</td><td>H3K9me3</td><td>97.7</td><td>9927567</td><td>CD656_i38_A</td><td>no-N</td></tr><tr><td>238</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD687_i31_A</td><td>H3K9me3</td><td>96.5</td><td>9708825</td><td>CD685_i33_A</td><td>no-N</td></tr><tr><td>239</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD745_i40_A</td><td>hH2B</td><td>98.9</td><td>7706122</td><td>CD685_i33_A</td><td>no-N</td></tr><tr><td>240</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD746_i41_A</td><td>hH2B</td><td>98.7</td><td>7986318</td><td>CD727_i22_A</td><td>no-N</td></tr><tr><td>241</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD742_i37_A</td><td>hH2B</td><td>99.0</td><td>10163595</td><td>CD725_i20_A</td><td></td></tr><tr><td>242</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD744_i39_A</td><td>hH2B</td><td>98.8</td><td>9149919</td><td>CD743_i38_A</td><td></td></tr><tr><td>243</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD657_i39_A</td><td>hH3</td><td>98.5</td><td>9787164</td><td>CD656_i38_A</td><td>no-N</td></tr><tr><td>244</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD686_i32_A</td><td>hH3</td><td>98.5</td><td>9187849</td><td>CD685_i33_A</td><td>no-N</td></tr></tbody></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tr><td>245</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD685_i33_A</td><td>Input</td><td>98.9</td><td>8575543</td><td>N/A</td><td>no-N</td></tr><tr><td>246</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD656_i38_A</td><td>Input</td><td>99.0</td><td>9538401</td><td>N/A</td><td>no-N</td></tr><tr><td>247</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD727_i22_A</td><td>Input</td><td>99.0</td><td>8307630</td><td>N/A</td><td>no-N</td></tr><tr><td>248</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD725_i20_A</td><td>Input</td><td>98.9</td><td>9546376</td><td>N/A</td><td></td></tr><tr><td>249</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD743_i38_A</td><td>Input</td><td>98.4</td><td>9014884</td><td>N/A</td><td></td></tr><tr><td>250</td><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>CD202_i38_A</td><td>H3K9me3</td><td>96.9</td><td>7305893</td><td>CD201_i37_A</td><td></td></tr><tr><td>251</td><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>CD562_i30_A</td><td>H3K9me3</td><td>96.8</td><td>9060889</td><td>CD561_i31_A</td><td></td></tr><tr><td>252</td><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>CD201_i37_A</td><td>Input</td><td>98.5</td><td>6529896</td><td>N/A</td><td></td></tr><tr><td>253</td><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>CD561_i31_A</td><td>Input</td><td>98.8</td><td>10258869</td><td>N/A</td><td></td></tr><tr><td>254</td><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>CD204_i40_A</td><td>H3K9me3</td><td>96.1</td><td>5680629</td><td>CD203_i39_A</td><td></td></tr><tr><td>255</td><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>CD564_i28_A</td><td>H3K9me3</td><td>96.6</td><td>8147239</td><td>CD563_i29_A</td><td></td></tr><tr><td>256</td><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>CD203_i39_A</td><td>Input</td><td>98.4</td><td>8587633</td><td>N/A</td><td></td></tr><tr><td>257</td><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>CD563_i29_A</td><td>Input</td><td>98.5</td><td>8521230</td><td>N/A</td><td></td></tr><tr><td>258</td><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>CD206_i42_A</td><td>H3K9me3</td><td>96.7</td><td>6528076</td><td>CD205_i41_A</td><td></td></tr><tr><td>259</td><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>CD566_i42_A</td><td>H3K9me3</td><td>97.2</td><td>7423559</td><td>CD565_i47_A</td><td></td></tr><tr><td>260</td><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>CD205_i41_A</td><td>Input</td><td>98.6</td><td>5535835</td><td>N/A</td><td></td></tr><tr><td>261</td><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>CD565_i47_A</td><td>Input</td><td>98.9</td><td>8428602</td><td>N/A</td><td></td></tr></table>
<table><caption>Table S4. ChIP-seq libraries created and analyzed in this study (continued).</caption><tr><td>245</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD685_i33_A</td><td>Input</td><td>98.9</td><td>8575543</td><td>N/A</td><td>no-N</td></tr><tr><td>246</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD656_i38_A</td><td>Input</td><td>99.0</td><td>9538401</td><td>N/A</td><td>no-N</td></tr><tr><td>247</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD727_i22_A</td><td>Input</td><td>99.0</td><td>8307630</td><td>N/A</td><td>no-N</td></tr><tr><td>248</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD725_i20_A</td><td>Input</td><td>98.9</td><td>9546376</td><td>N/A</td><td></td></tr><tr><td>249</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD743_i38_A</td><td>Input</td><td>98.4</td><td>9014884</td><td>N/A</td><td></td></tr><tr><td>250</td><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>CD202_i38_A</td><td>H3K9me3</td><td>96.9</td><td>7305893</td><td>CD201_i37_A</td><td></td></tr><tr><td>251</td><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>CD562_i30_A</td><td>H3K9me3</td><td>96.8</td><td>9060889</td><td>CD561_i31_A</td><td></td></tr><tr><td>252</td><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>CD201_i37_A</td><td>Input</td><td>98.5</td><td>6529896</td><td>N/A</td><td></td></tr><tr><td>253</td><td>Strain F::lacO(i1); dim-5+</td><td>T764.1</td><td>CD561_i31_A</td><td>Input</td><td>98.8</td><td>10258869</td><td>N/A</td><td></td></tr><tr><td>254</td><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>CD204_i40_A</td><td>H3K9me3</td><td>96.1</td><td>5680629</td><td>CD203_i39_A</td><td></td></tr><tr><td>255</td><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>CD564_i28_A</td><td>H3K9me3</td><td>96.6</td><td>8147239</td><td>CD563_i29_A</td><td></td></tr><tr><td>256</td><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>CD203_i39_A</td><td>Input</td><td>98.4</td><td>8587633</td><td>N/A</td><td></td></tr><tr><td>257</td><td>Strain F::lacO(i2); dim-5+</td><td>T766.1</td><td>CD563_i29_A</td><td>Input</td><td>98.5</td><td>8521230</td><td>N/A</td><td></td></tr><tr><td>258</td><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>CD206_i42_A</td><td>H3K9me3</td><td>96.7</td><td>6528076</td><td>CD205_i41_A</td><td></td></tr><tr><td>259</td><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>CD566_i42_A</td><td>H3K9me3</td><td>97.2</td><td>7423559</td><td>CD565_i47_A</td><td></td></tr><tr><td>260</td><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>CD205_i41_A</td><td>Input</td><td>98.6</td><td>5535835</td><td>N/A</td><td></td></tr><tr><td>261</td><td>Strain F::lacO(i3); dim-5+</td><td>T776.1</td><td>CD565_i47_A</td><td>Input</td><td>98.9</td><td>8428602</td><td>N/A</td><td></td></tr></table>
<table><caption>Table S5. MNase-seq libraries created and analyzed in this study.</caption><thead><tr><td>#</td><td>Genetic condition</td><td>Strain ID</td><td>Library</td><td>Alignment rate (%)</td><td>Aligned reads *</td><td>Additional conditions</td></tr></thead><tbody><tr><td>1</td><td>Strain A</td><td>T647.1h</td><td>CD1072_i0_A</td><td>99.3</td><td>26796362</td><td></td></tr><tr><td>2</td><td>Strain B</td><td>T658.1</td><td>CD530_i12_A</td><td>99.1</td><td>10769647</td><td></td></tr><tr><td>3</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD533_i15_A</td><td>99.0</td><td>12371585</td><td></td></tr><tr><td>4</td><td>Strain C</td><td>C290.6</td><td>CD290_i21_A</td><td>98.5</td><td>11797272</td><td></td></tr><tr><td>5</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>CD832_i30_A</td><td>99.2</td><td>12764340</td><td></td></tr><tr><td>6</td><td>Strain E</td><td>T601.2h</td><td>CD722_i17_A</td><td>99.1</td><td>11456746</td><td></td></tr><tr><td>7</td><td>Strain E</td><td>T601.2h</td><td>CD587_i15_A</td><td>99.2</td><td>15232062</td><td>no-N</td></tr><tr><td>8</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD589_i14_A</td><td>99.3</td><td>14815243</td><td>no-N</td></tr></tbody></table>

<footnote>* Number of aligned reads is reported for the nuclear genome (corresponding to the interval 64841-41123470 in mNC12.lacO-tetO)</footnote>
<table><caption>Table S5. MNase-seq libraries created and analyzed in this study.</caption><thead><tr><td>#</td><td>Genetic condition</td><td>Strain ID</td><td>Library</td><td>Alignment rate (%)</td><td>Aligned reads *</td><td>Additional conditions</td></tr></thead><tbody><tr><td>1</td><td>Strain A</td><td>T647.1h</td><td>CD1072_i0_A</td><td>99.3</td><td>26796362</td><td></td></tr><tr><td>2</td><td>Strain B</td><td>T658.1</td><td>CD530_i12_A</td><td>99.1</td><td>10769647</td><td></td></tr><tr><td>3</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>CD533_i15_A</td><td>99.0</td><td>12371585</td><td></td></tr><tr><td>4</td><td>Strain C</td><td>C290.6</td><td>CD290_i21_A</td><td>98.5</td><td>11797272</td><td></td></tr><tr><td>5</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>CD832_i30_A</td><td>99.2</td><td>12764340</td><td></td></tr><tr><td>6</td><td>Strain E</td><td>T601.2h</td><td>CD722_i17_A</td><td>99.1</td><td>11456746</td><td></td></tr><tr><td>7</td><td>Strain E</td><td>T601.2h</td><td>CD587_i15_A</td><td>99.2</td><td>15232062</td><td>no-N</td></tr><tr><td>8</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>CD589_i14_A</td><td>99.3</td><td>14815243</td><td>no-N</td></tr></tbody></table>

<footnote>* Number of aligned reads is reported for the nuclear genome (corresponding to the interval 64841-41123470 in mNC12.lacO-tetO)</footnote>
<table><caption>Table S6. sRNA-seq libraries created and analyzed in this study.</caption><thead><tr><th>#</th><th>Genetic condition</th><th>Strain ID</th><th>Library</th><th>Alignment rate (%)</th><th>Mitochondrial reads</th><th>Ribosomal reads</th><th>Core nuclear reads</th><th>Additional conditions</th></tr></thead><tbody><tr><td>1</td><td>Strain A</td><td>T647.1h</td><td>VR18_i16_A</td><td>91.5</td><td>89140</td><td>6334645</td><td>768640</td><td></td></tr><tr><td>2</td><td>Strain A</td><td>T647.1h</td><td>VR167_i2_A</td><td>94.5</td><td>273129</td><td>4821765</td><td>1112917</td><td></td></tr><tr><td>3</td><td>Strain B</td><td>T658.1</td><td>VR13_i11_A</td><td>94.7</td><td>72864</td><td>3349707</td><td>669524</td><td></td></tr><tr><td>4</td><td>Strain B</td><td>T658.1</td><td>VR200_i19_A</td><td>95.1</td><td>354937</td><td>6246084</td><td>2046200</td><td></td></tr><tr><td>5</td><td>Strain B</td><td>T658.1</td><td>VR259_i47_A</td><td>92.6</td><td>330465</td><td>4767444</td><td>1953046</td><td>BI</td></tr><tr><td>6</td><td>Strain B</td><td>T658.1</td><td>VR274_i37_A</td><td>95.3</td><td>397237</td><td>6514549</td><td>2298582</td><td>BI</td></tr><tr><td>7</td><td>Strain B</td><td>T658.1</td><td>VR48_i25_A</td><td>93.6</td><td>1591285</td><td>3207673</td><td>923786</td><td>HU</td></tr><tr><td>8</td><td>Strain B</td><td>T658.1</td><td>VR202_i21_A</td><td>94.3</td><td>1523622</td><td>4343824</td><td>2032401</td><td>HU</td></tr><tr><td>9</td><td>Strain B</td><td>T658.1</td><td>VR201_i20_A</td><td>95.9</td><td>283061</td><td>6067766</td><td>1137260</td><td>Tc</td></tr><tr><td>10</td><td>Strain B</td><td>T658.1</td><td>VR232_i43_A</td><td>95.0</td><td>100545</td><td>7477216</td><td>1011309</td><td>Tc</td></tr><tr><td>11</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>VR181_i9_A</td><td>95.1</td><td>365062</td><td>5327883</td><td>2700055</td><td></td></tr><tr><td>12</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>VR234_i45_A</td><td>95.0</td><td>228614</td><td>4714202</td><td>1942622</td><td></td></tr><tr><td>13</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>VR156_i18_A</td><td>93.7</td><td>208510</td><td>3976531</td><td>2827441</td><td></td></tr><tr><td>14</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>VR226_i43_A</td><td>94.6</td><td>168717</td><td>5107627</td><td>2397763</td><td></td></tr><tr><td>15</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>VR275_i38_A</td><td>95.2</td><td>362259</td><td>6686193</td><td>1841027</td><td>BI</td></tr><tr><td>16</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>VR328_i0_A</td><td>86.5</td><td>140179</td><td>4821635</td><td>969352</td><td>BI</td></tr><tr><td>17</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>VR67_i20_A</td><td>96.4</td><td>117222</td><td>1653395</td><td>4463222</td><td></td></tr><tr><td>18</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>VR187_i5_A</td><td>93.3</td><td>180826</td><td>2141171</td><td>5662706</td><td></td></tr><tr><td>19</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>VR51_i28_A</td><td>94.1</td><td>199541</td><td>5057507</td><td>1055664</td><td></td></tr><tr><td>20</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>VR158_i20_A</td><td>93.8</td><td>337753</td><td>5208452</td><td>1259318</td><td></td></tr><tr><td>21</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>VR159_i21_A</td><td>91.0</td><td>176974</td><td>3485602</td><td>2274100</td><td></td></tr><tr><td>22</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>VR206_i25_A</td><td>90.5</td><td>352184</td><td>6498566</td><td>3417528</td><td></td></tr><tr><td>23</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>VR75_i33_A</td><td>96.0</td><td>175742</td><td>4122871</td><td>622478</td><td></td></tr><tr><td>24</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>VR207_i26_A</td><td>90.3</td><td>177939</td><td>5426733</td><td>786112</td><td></td></tr><tr><td>25</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>VR182_i46_A</td><td>94.9</td><td>272390</td><td>5804726</td><td>3582359</td><td></td></tr><tr><td>26</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>VR219_i36_A</td><td>93.3</td><td>285179</td><td>7066045</td><td>2967365</td><td></td></tr><tr><td>27</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>VR178_i42_A</td><td>95.2</td><td>234040</td><td>3694120</td><td>7134007</td><td></td></tr><tr><td>28</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>VR210_i29_A</td><td>94.0</td><td>213286</td><td>3682292</td><td>4382441</td><td></td></tr><tr><td>29</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>VR213_i32_A</td><td>94.0</td><td>127733</td><td>6865730</td><td>1343029</td><td></td></tr><tr><td>30</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>VR221_i38_A</td><td>94.4</td><td>171898</td><td>6281191</td><td>1998765</td><td></td></tr><tr><td>31</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>VR157_i19_A</td><td>92.4</td><td>384973</td><td>5419815</td><td>1623912</td><td></td></tr><tr><td>32</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>VR204_i23_A</td><td>95.4</td><td>305828</td><td>5999418</td><td>905752</td><td></td></tr><tr><td>33</td><td>Strain B::top3Δ</td><td>T812.11h</td><td>VR242_i42_A</td><td>95.8</td><td>175430</td><td>3631633</td><td>4186739</td><td></td></tr><tr><td>34</td><td>Strain B::top3Δ</td><td>T812.11h</td><td>VR246_i46_A</td><td>94.8</td><td>122062</td><td>5173798</td><td>2023411</td><td></td></tr><tr><td>35</td><td>Strain C</td><td>C290.6</td><td>VR139_i1_A</td><td>94.0</td><td>270021</td><td>5810093</td><td>2915944</td><td></td></tr><tr><td>36</td><td>Strain C</td><td>C290.6</td><td>VR195_i14_A</td><td>90.4</td><td>192356</td><td>3984691</td><td>2252637</td><td></td></tr><tr><td>37</td><td>Strain C</td><td>C290.6</td><td>VR15_i13_A</td><td>88.9</td><td>598556</td><td>2738413</td><td>756356</td><td>HU</td></tr><tr><td>38</td><td>Strain C</td><td>C290.6</td><td>VR199_i18_A</td><td>93.8</td><td>296056</td><td>5583631</td><td>1021777</td><td>HU</td></tr><tr><td>39</td><td>Strain C::lacO(d1)</td><td>C290.6.C4</td><td>VR4_i3_A</td><td>95.4</td><td>101949</td><td>3745549</td><td>961248</td><td></td></tr><tr><td>40</td><td>Strain C::lacO(d1)</td><td>C290.6.C4</td><td>VR264_i27_A</td><td>96.5</td><td>248698</td><td>6752046</td><td>2180782</td><td></td></tr><tr><td>41</td><td>Strain C::lacO(d2)</td><td>C290.6.C6</td><td>VR5_i28_A</td><td>92.3</td><td>124222</td><td>3910687</td><td>1078488</td><td></td></tr><tr><td>42</td><td>Strain C::lacO(d2)</td><td>C290.6.C6</td><td>VR265_i28_A</td><td>93.8</td><td>334516</td><td>6952769</td><td>3550683</td><td></td></tr><tr><td>43</td><td>Strain C::dim-5+</td><td>T663.2</td><td>VR1_i27_A</td><td>96.3</td><td>176973</td><td>5096301</td><td>894206</td><td></td></tr><tr><td>44</td><td>Strain C::dim-5+</td><td>T663.2</td><td>VR140_i2_A</td><td>95.2</td><td>323739</td><td>9390098</td><td>1655988</td><td></td></tr></tbody></table>
<table><caption>Table S6. sRNA-seq libraries created and analyzed in this study.</caption><thead><tr><th>#</th><th>Genetic condition</th><th>Strain ID</th><th>Library</th><th>Alignment rate (%)</th><th>Mitochondrial reads</th><th>Ribosomal reads</th><th>Core nuclear reads</th><th>Additional conditions</th></tr></thead><tbody><tr><td>1</td><td>Strain A</td><td>T647.1h</td><td>VR18_i16_A</td><td>91.5</td><td>89140</td><td>6334645</td><td>768640</td><td></td></tr><tr><td>2</td><td>Strain A</td><td>T647.1h</td><td>VR167_i2_A</td><td>94.5</td><td>273129</td><td>4821765</td><td>1112917</td><td></td></tr><tr><td>3</td><td>Strain B</td><td>T658.1</td><td>VR13_i11_A</td><td>94.7</td><td>72864</td><td>3349707</td><td>669524</td><td></td></tr><tr><td>4</td><td>Strain B</td><td>T658.1</td><td>VR200_i19_A</td><td>95.1</td><td>354937</td><td>6246084</td><td>2046200</td><td></td></tr><tr><td>5</td><td>Strain B</td><td>T658.1</td><td>VR259_i47_A</td><td>92.6</td><td>330465</td><td>4767444</td><td>1953046</td><td>BI</td></tr><tr><td>6</td><td>Strain B</td><td>T658.1</td><td>VR274_i37_A</td><td>95.3</td><td>397237</td><td>6514549</td><td>2298582</td><td>BI</td></tr><tr><td>7</td><td>Strain B</td><td>T658.1</td><td>VR48_i25_A</td><td>93.6</td><td>1591285</td><td>3207673</td><td>923786</td><td>HU</td></tr><tr><td>8</td><td>Strain B</td><td>T658.1</td><td>VR202_i21_A</td><td>94.3</td><td>1523622</td><td>4343824</td><td>2032401</td><td>HU</td></tr><tr><td>9</td><td>Strain B</td><td>T658.1</td><td>VR201_i20_A</td><td>95.9</td><td>283061</td><td>6067766</td><td>1137260</td><td>Tc</td></tr><tr><td>10</td><td>Strain B</td><td>T658.1</td><td>VR232_i43_A</td><td>95.0</td><td>100545</td><td>7477216</td><td>1011309</td><td>Tc</td></tr><tr><td>11</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>VR181_i9_A</td><td>95.1</td><td>365062</td><td>5327883</td><td>2700055</td><td></td></tr><tr><td>12</td><td>Strain B::chd1Δ</td><td>T709.3h</td><td>VR234_i45_A</td><td>95.0</td><td>228614</td><td>4714202</td><td>1942622</td><td></td></tr><tr><td>13</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>VR156_i18_A</td><td>93.7</td><td>208510</td><td>3976531</td><td>2827441</td><td></td></tr><tr><td>14</td><td>Strain B::eri1Δ</td><td>T770.2h</td><td>VR226_i43_A</td><td>94.6</td><td>168717</td><td>5107627</td><td>2397763</td><td></td></tr><tr><td>15</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>VR275_i38_A</td><td>95.2</td><td>362259</td><td>6686193</td><td>1841027</td><td>BI</td></tr><tr><td>16</td><td>Strain B::flag-sad-6</td><td>T827.7h</td><td>VR328_i0_A</td><td>86.5</td><td>140179</td><td>4821635</td><td>969352</td><td>BI</td></tr><tr><td>17</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>VR67_i20_A</td><td>96.4</td><td>117222</td><td>1653395</td><td>4463222</td><td></td></tr><tr><td>18</td><td>Strain B::hda1Δ</td><td>T714.8h</td><td>VR187_i5_A</td><td>93.3</td><td>180826</td><td>2141171</td><td>5662706</td><td></td></tr><tr><td>19</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>VR51_i28_A</td><td>94.1</td><td>199541</td><td>5057507</td><td>1055664</td><td></td></tr><tr><td>20</td><td>Strain B::qde-1Δ</td><td>T710.2h</td><td>VR158_i20_A</td><td>93.8</td><td>337753</td><td>5208452</td><td>1259318</td><td></td></tr><tr><td>21</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>VR159_i21_A</td><td>91.0</td><td>176974</td><td>3485602</td><td>2274100</td><td></td></tr><tr><td>22</td><td>Strain B::qde-2Δ</td><td>T711.21h</td><td>VR206_i25_A</td><td>90.5</td><td>352184</td><td>6498566</td><td>3417528</td><td></td></tr><tr><td>23</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>VR75_i33_A</td><td>96.0</td><td>175742</td><td>4122871</td><td>622478</td><td></td></tr><tr><td>24</td><td>Strain B::qde-3Δ</td><td>T712.2h</td><td>VR207_i26_A</td><td>90.3</td><td>177939</td><td>5426733</td><td>786112</td><td></td></tr><tr><td>25</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>VR182_i46_A</td><td>94.9</td><td>272390</td><td>5804726</td><td>3582359</td><td></td></tr><tr><td>26</td><td>Strain B::rad51Δ</td><td>T737.1h</td><td>VR219_i36_A</td><td>93.3</td><td>285179</td><td>7066045</td><td>2967365</td><td></td></tr><tr><td>27</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>VR178_i42_A</td><td>95.2</td><td>234040</td><td>3694120</td><td>7134007</td><td></td></tr><tr><td>28</td><td>Strain B::rad52Δ</td><td>T738.1h</td><td>VR210_i29_A</td><td>94.0</td><td>213286</td><td>3682292</td><td>4382441</td><td></td></tr><tr><td>29</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>VR213_i32_A</td><td>94.0</td><td>127733</td><td>6865730</td><td>1343029</td><td></td></tr><tr><td>30</td><td>Strain B::rtt109Δ</td><td>T786.3h</td><td>VR221_i38_A</td><td>94.4</td><td>171898</td><td>6281191</td><td>1998765</td><td></td></tr><tr><td>31</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>VR157_i19_A</td><td>92.4</td><td>384973</td><td>5419815</td><td>1623912</td><td></td></tr><tr><td>32</td><td>Strain B::sad-6Δ</td><td>T707.51h</td><td>VR204_i23_A</td><td>95.4</td><td>305828</td><td>5999418</td><td>905752</td><td></td></tr><tr><td>33</td><td>Strain B::top3Δ</td><td>T812.11h</td><td>VR242_i42_A</td><td>95.8</td><td>175430</td><td>3631633</td><td>4186739</td><td></td></tr><tr><td>34</td><td>Strain B::top3Δ</td><td>T812.11h</td><td>VR246_i46_A</td><td>94.8</td><td>122062</td><td>5173798</td><td>2023411</td><td></td></tr><tr><td>35</td><td>Strain C</td><td>C290.6</td><td>VR139_i1_A</td><td>94.0</td><td>270021</td><td>5810093</td><td>2915944</td><td></td></tr><tr><td>36</td><td>Strain C</td><td>C290.6</td><td>VR195_i14_A</td><td>90.4</td><td>192356</td><td>3984691</td><td>2252637</td><td></td></tr><tr><td>37</td><td>Strain C</td><td>C290.6</td><td>VR15_i13_A</td><td>88.9</td><td>598556</td><td>2738413</td><td>756356</td><td>HU</td></tr><tr><td>38</td><td>Strain C</td><td>C290.6</td><td>VR199_i18_A</td><td>93.8</td><td>296056</td><td>5583631</td><td>1021777</td><td>HU</td></tr><tr><td>39</td><td>Strain C::lacO(d1)</td><td>C290.6.C4</td><td>VR4_i3_A</td><td>95.4</td><td>101949</td><td>3745549</td><td>961248</td><td></td></tr><tr><td>40</td><td>Strain C::lacO(d1)</td><td>C290.6.C4</td><td>VR264_i27_A</td><td>96.5</td><td>248698</td><td>6752046</td><td>2180782</td><td></td></tr><tr><td>41</td><td>Strain C::lacO(d2)</td><td>C290.6.C6</td><td>VR5_i28_A</td><td>92.3</td><td>124222</td><td>3910687</td><td>1078488</td><td></td></tr><tr><td>42</td><td>Strain C::lacO(d2)</td><td>C290.6.C6</td><td>VR265_i28_A</td><td>93.8</td><td>334516</td><td>6952769</td><td>3550683</td><td></td></tr><tr><td>43</td><td>Strain C::dim-5+</td><td>T663.2</td><td>VR1_i27_A</td><td>96.3</td><td>176973</td><td>5096301</td><td>894206</td><td></td></tr><tr><td>44</td><td>Strain C::dim-5+</td><td>T663.2</td><td>VR140_i2_A</td><td>95.2</td><td>323739</td><td>9390098</td><td>1655988</td><td></td></tr></tbody></table>
<table><caption>Table S6. sRNA-seq libraries created and analyzed in this study (continued).</caption><tr><td>45</td><td>Strain C::qde-1Δ</td><td>T739.4h</td><td>VR52_i29_A</td><td>96.3</td><td>167825</td><td>5736656</td><td>849642</td><td></td></tr><tr><td>46</td><td>Strain C::qde-1Δ</td><td>T739.4h</td><td>VR170_i34_A</td><td>94.6</td><td>63998</td><td>8986893</td><td>962974</td><td></td></tr><tr><td>47</td><td>Strain C::qde-1Δ</td><td>T739.4h</td><td>VR368_i2_A</td><td>97.9</td><td>254400</td><td>22662127</td><td>2471385</td><td></td></tr><tr><td>48</td><td>Strain C::rad51Δ</td><td>T678.5h</td><td>VR27_i23_A</td><td>95.2</td><td>186305</td><td>6174654</td><td>2362345</td><td></td></tr><tr><td>49</td><td>Strain C::rad51Δ</td><td>T678.5h</td><td>VR41_i18_A</td><td>90.0</td><td>62074</td><td>2358548</td><td>1006793</td><td></td></tr><tr><td>50</td><td>Strain C::rad51Δ</td><td>T678.5h</td><td>VR177_i41_A</td><td>94.3</td><td>215374</td><td>4479746</td><td>5634639</td><td></td></tr><tr><td>51</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>VR255_i39_A</td><td>96.1</td><td>153384</td><td>9522494</td><td>1376775</td><td></td></tr><tr><td>52</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>VR260_i48_A</td><td>95.9</td><td>143268</td><td>7577198</td><td>1006200</td><td></td></tr><tr><td>53</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>VR186_i26_A</td><td>91.5</td><td>830143</td><td>4924184</td><td>2136729</td><td></td></tr><tr><td>54</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>VR198_i17_A</td><td>94.7</td><td>166768</td><td>5612364</td><td>1034516</td><td></td></tr><tr><td>55</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>VR6_i4_A</td><td>96.5</td><td>161363</td><td>5416165</td><td>1501359</td><td></td></tr><tr><td>56</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>VR143_i5_A</td><td>94.2</td><td>185216</td><td>7371866</td><td>2690269</td><td></td></tr><tr><td>57</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>VR7_i5_A</td><td>95.5</td><td>119282</td><td>3553738</td><td>1260019</td><td></td></tr><tr><td>58</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>VR266_i29_A</td><td>95.3</td><td>225356</td><td>7131021</td><td>2355417</td><td></td></tr><tr><td>59</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>VR62_i13_A</td><td>94.1</td><td>85391</td><td>1872060</td><td>2123860</td><td></td></tr><tr><td>60</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>VR179_i43_A</td><td>93.4</td><td>209183</td><td>4538707</td><td>4005878</td><td></td></tr><tr><td>61</td><td>Strain E</td><td>T601.2h</td><td>VR166_i30_A</td><td>94.5</td><td>435793</td><td>6926994</td><td>1351635</td><td></td></tr><tr><td>62</td><td>Strain E</td><td>T601.2h</td><td>VR347_i0_A</td><td>93.0</td><td>304726</td><td>12151367</td><td>1691174</td><td></td></tr><tr><td>63</td><td>Strain E</td><td>T601.2h</td><td>VR304_i23_A</td><td>95.2</td><td>312596</td><td>7185662</td><td>2676606</td><td>no-N</td></tr><tr><td>64</td><td>Strain E</td><td>T601.2h</td><td>VR308_i1_A</td><td>94.5</td><td>384311</td><td>6889801</td><td>1990153</td><td>no-N</td></tr><tr><td>65</td><td>Strain E</td><td>T601.2h</td><td>VR280_i43_A</td><td>94.3</td><td>176832</td><td>4934667</td><td>894476</td><td>N+ control</td></tr><tr><td>66</td><td>Strain E</td><td>T601.2h</td><td>VR350_i48_A</td><td>93.8</td><td>46571</td><td>4022817</td><td>559369</td><td>N+ control</td></tr><tr><td>67</td><td>Strain E</td><td>T601.2h</td><td>VR353_i46_A</td><td>94.2</td><td>134854</td><td>5476783</td><td>813063</td><td>N+ control</td></tr><tr><td>68</td><td>Strain E</td><td>T601.2h</td><td>VR314_i7_A</td><td>94.3</td><td>678899</td><td>9254058</td><td>1398482</td><td>"released"</td></tr><tr><td>69</td><td>Strain E</td><td>T601.2h</td><td>VR315_i8_A</td><td>94.0</td><td>330082</td><td>7129312</td><td>1850101</td><td>"maintained"</td></tr><tr><td>70</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>VR180_i44_A</td><td>89.2</td><td>231596</td><td>8574884</td><td>2001104</td><td></td></tr><tr><td>71</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>VR208_i27_A</td><td>93.8</td><td>256389</td><td>6289769</td><td>2410247</td><td></td></tr><tr><td>72</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>VR329_i0_A</td><td>93.2</td><td>290039</td><td>8427720</td><td>1701623</td><td>no-N</td></tr><tr><td>73</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>VR330_i0_A</td><td>94.5</td><td>250838</td><td>8409414</td><td>1660895</td><td>no-N</td></tr><tr><td>74</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>VR344_i5_A</td><td>95.4</td><td>194513</td><td>6910524</td><td>1270996</td><td>no-N</td></tr><tr><td>75</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>VR312_i0_A</td><td>95.4</td><td>889847</td><td>17261386</td><td>2543135</td><td>no-N</td></tr><tr><td>76</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>VR316_i0_A</td><td>95.1</td><td>521087</td><td>11517703</td><td>1726187</td><td>no-N</td></tr><tr><td>77</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>VR313_i0_A</td><td>95.1</td><td>917304</td><td>16945619</td><td>2790338</td><td>no-N</td></tr><tr><td>78</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>VR317_i0_A</td><td>95.2</td><td>746121</td><td>12363669</td><td>2086566</td><td>no-N</td></tr><tr><td>79</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>VR331_i3_B</td><td>94.2</td><td>181149</td><td>3410221</td><td>2840787</td><td>no-N</td></tr><tr><td>80</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>VR332_i4_C</td><td>94.3</td><td>245869</td><td>5105236</td><td>4387030</td><td>no-N</td></tr><tr><td>81</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>VR333_i5_B</td><td>92.9</td><td>129785</td><td>3427957</td><td>2487608</td><td>no-N</td></tr><tr><td>82</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>VR334_i6_B</td><td>90.7</td><td>103778</td><td>3446758</td><td>1789739</td><td>no-N</td></tr><tr><td>83</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>VR302_i0_A</td><td>94.6</td><td>397546</td><td>10630045</td><td>1666933</td><td>no-N</td></tr><tr><td>84</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>VR348_i0_A</td><td>95.0</td><td>431348</td><td>12883573</td><td>2143730</td><td>no-N</td></tr><tr><td>85</td><td>Strain F::lacO(i1)</td><td>T724.2h</td><td>VR76_i4_A</td><td>91.1</td><td>121473</td><td>3805143</td><td>899079</td><td></td></tr><tr><td>86</td><td>Strain F::lacO(i1)</td><td>T724.2h</td><td>VR189_i7_A</td><td>90.8</td><td>272686</td><td>3757672</td><td>2319565</td><td></td></tr><tr><td>87</td><td>Strain F::lacO(i2)</td><td>T726.1h</td><td>VR80_i8_A</td><td>93.5</td><td>132936</td><td>3561318</td><td>1139354</td><td></td></tr><tr><td>88</td><td>Strain F::lacO(i2)</td><td>T726.1h</td><td>VR191_i10_A</td><td>91.8</td><td>467307</td><td>4934028</td><td>2998980</td><td></td></tr><tr><td>89</td><td>Strain F::lacO(i3)</td><td>T728.1h</td><td>VR81_i25_A</td><td>85.6</td><td>62911</td><td>3848337</td><td>583177</td><td></td></tr></table>
<table><caption>Table S6. sRNA-seq libraries created and analyzed in this study (continued).</caption><tr><td>45</td><td>Strain C::qde-1Δ</td><td>T739.4h</td><td>VR52_i29_A</td><td>96.3</td><td>167825</td><td>5736656</td><td>849642</td><td></td></tr><tr><td>46</td><td>Strain C::qde-1Δ</td><td>T739.4h</td><td>VR170_i34_A</td><td>94.6</td><td>63998</td><td>8986893</td><td>962974</td><td></td></tr><tr><td>47</td><td>Strain C::qde-1Δ</td><td>T739.4h</td><td>VR368_i2_A</td><td>97.9</td><td>254400</td><td>22662127</td><td>2471385</td><td></td></tr><tr><td>48</td><td>Strain C::rad51Δ</td><td>T678.5h</td><td>VR27_i23_A</td><td>95.2</td><td>186305</td><td>6174654</td><td>2362345</td><td></td></tr><tr><td>49</td><td>Strain C::rad51Δ</td><td>T678.5h</td><td>VR41_i18_A</td><td>90.0</td><td>62074</td><td>2358548</td><td>1006793</td><td></td></tr><tr><td>50</td><td>Strain C::rad51Δ</td><td>T678.5h</td><td>VR177_i41_A</td><td>94.3</td><td>215374</td><td>4479746</td><td>5634639</td><td></td></tr><tr><td>51</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>VR255_i39_A</td><td>96.1</td><td>153384</td><td>9522494</td><td>1376775</td><td></td></tr><tr><td>52</td><td>Strain C::sad-6Δ</td><td>T752.13h</td><td>VR260_i48_A</td><td>95.9</td><td>143268</td><td>7577198</td><td>1006200</td><td></td></tr><tr><td>53</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>VR186_i26_A</td><td>91.5</td><td>830143</td><td>4924184</td><td>2136729</td><td></td></tr><tr><td>54</td><td>Strain D::chapΔ</td><td>T690.1h</td><td>VR198_i17_A</td><td>94.7</td><td>166768</td><td>5612364</td><td>1034516</td><td></td></tr><tr><td>55</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>VR6_i4_A</td><td>96.5</td><td>161363</td><td>5416165</td><td>1501359</td><td></td></tr><tr><td>56</td><td>Strain D::dim-7Δ</td><td>T688.2h</td><td>VR143_i5_A</td><td>94.2</td><td>185216</td><td>7371866</td><td>2690269</td><td></td></tr><tr><td>57</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>VR7_i5_A</td><td>95.5</td><td>119282</td><td>3553738</td><td>1260019</td><td></td></tr><tr><td>58</td><td>Strain D::dim-9Δ</td><td>T689.2h</td><td>VR266_i29_A</td><td>95.3</td><td>225356</td><td>7131021</td><td>2355417</td><td></td></tr><tr><td>59</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>VR62_i13_A</td><td>94.1</td><td>85391</td><td>1872060</td><td>2123860</td><td></td></tr><tr><td>60</td><td>Strain D::hda1Δ</td><td>T743.3h</td><td>VR179_i43_A</td><td>93.4</td><td>209183</td><td>4538707</td><td>4005878</td><td></td></tr><tr><td>61</td><td>Strain E</td><td>T601.2h</td><td>VR166_i30_A</td><td>94.5</td><td>435793</td><td>6926994</td><td>1351635</td><td></td></tr><tr><td>62</td><td>Strain E</td><td>T601.2h</td><td>VR347_i0_A</td><td>93.0</td><td>304726</td><td>12151367</td><td>1691174</td><td></td></tr><tr><td>63</td><td>Strain E</td><td>T601.2h</td><td>VR304_i23_A</td><td>95.2</td><td>312596</td><td>7185662</td><td>2676606</td><td>no-N</td></tr><tr><td>64</td><td>Strain E</td><td>T601.2h</td><td>VR308_i1_A</td><td>94.5</td><td>384311</td><td>6889801</td><td>1990153</td><td>no-N</td></tr><tr><td>65</td><td>Strain E</td><td>T601.2h</td><td>VR280_i43_A</td><td>94.3</td><td>176832</td><td>4934667</td><td>894476</td><td>N+ control</td></tr><tr><td>66</td><td>Strain E</td><td>T601.2h</td><td>VR350_i48_A</td><td>93.8</td><td>46571</td><td>4022817</td><td>559369</td><td>N+ control</td></tr><tr><td>67</td><td>Strain E</td><td>T601.2h</td><td>VR353_i46_A</td><td>94.2</td><td>134854</td><td>5476783</td><td>813063</td><td>N+ control</td></tr><tr><td>68</td><td>Strain E</td><td>T601.2h</td><td>VR314_i7_A</td><td>94.3</td><td>678899</td><td>9254058</td><td>1398482</td><td>"released"</td></tr><tr><td>69</td><td>Strain E</td><td>T601.2h</td><td>VR315_i8_A</td><td>94.0</td><td>330082</td><td>7129312</td><td>1850101</td><td>"maintained"</td></tr><tr><td>70</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>VR180_i44_A</td><td>89.2</td><td>231596</td><td>8574884</td><td>2001104</td><td></td></tr><tr><td>71</td><td>Strain E::tetR-gfp</td><td>T753.1</td><td>VR208_i27_A</td><td>93.8</td><td>256389</td><td>6289769</td><td>2410247</td><td></td></tr><tr><td>72</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>VR329_i0_A</td><td>93.2</td><td>290039</td><td>8427720</td><td>1701623</td><td>no-N</td></tr><tr><td>73</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>VR330_i0_A</td><td>94.5</td><td>250838</td><td>8409414</td><td>1660895</td><td>no-N</td></tr><tr><td>74</td><td>Strain E::nit-2Δ</td><td>T851.1h</td><td>VR344_i5_A</td><td>95.4</td><td>194513</td><td>6910524</td><td>1270996</td><td>no-N</td></tr><tr><td>75</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>VR312_i0_A</td><td>95.4</td><td>889847</td><td>17261386</td><td>2543135</td><td>no-N</td></tr><tr><td>76</td><td>Strain E::qde-1Δ</td><td>T839.10h</td><td>VR316_i0_A</td><td>95.1</td><td>521087</td><td>11517703</td><td>1726187</td><td>no-N</td></tr><tr><td>77</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>VR313_i0_A</td><td>95.1</td><td>917304</td><td>16945619</td><td>2790338</td><td>no-N</td></tr><tr><td>78</td><td>Strain E::qde-3Δ</td><td>T840.10h</td><td>VR317_i0_A</td><td>95.2</td><td>746121</td><td>12363669</td><td>2086566</td><td>no-N</td></tr><tr><td>79</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>VR331_i3_B</td><td>94.2</td><td>181149</td><td>3410221</td><td>2840787</td><td>no-N</td></tr><tr><td>80</td><td>Strain E::rad51Δ</td><td>T847.3h</td><td>VR332_i4_C</td><td>94.3</td><td>245869</td><td>5105236</td><td>4387030</td><td>no-N</td></tr><tr><td>81</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>VR333_i5_B</td><td>92.9</td><td>129785</td><td>3427957</td><td>2487608</td><td>no-N</td></tr><tr><td>82</td><td>Strain E::rad52Δ</td><td>T848.1h</td><td>VR334_i6_B</td><td>90.7</td><td>103778</td><td>3446758</td><td>1789739</td><td>no-N</td></tr><tr><td>83</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>VR302_i0_A</td><td>94.6</td><td>397546</td><td>10630045</td><td>1666933</td><td>no-N</td></tr><tr><td>84</td><td>Strain E::sad-6Δ</td><td>T774.4h</td><td>VR348_i0_A</td><td>95.0</td><td>431348</td><td>12883573</td><td>2143730</td><td>no-N</td></tr><tr><td>85</td><td>Strain F::lacO(i1)</td><td>T724.2h</td><td>VR76_i4_A</td><td>91.1</td><td>121473</td><td>3805143</td><td>899079</td><td></td></tr><tr><td>86</td><td>Strain F::lacO(i1)</td><td>T724.2h</td><td>VR189_i7_A</td><td>90.8</td><td>272686</td><td>3757672</td><td>2319565</td><td></td></tr><tr><td>87</td><td>Strain F::lacO(i2)</td><td>T726.1h</td><td>VR80_i8_A</td><td>93.5</td><td>132936</td><td>3561318</td><td>1139354</td><td></td></tr><tr><td>88</td><td>Strain F::lacO(i2)</td><td>T726.1h</td><td>VR191_i10_A</td><td>91.8</td><td>467307</td><td>4934028</td><td>2998980</td><td></td></tr><tr><td>89</td><td>Strain F::lacO(i3)</td><td>T728.1h</td><td>VR81_i25_A</td><td>85.6</td><td>62911</td><td>3848337</td><td>583177</td><td></td></tr></table>