TABLE 1.

Sequences of the ODNs, and structure of the modified residue^a.

Name	Sequence	Description
Q4	5′-TTAGGGTTAGGGTTAGGGTTAGGGTT-3′	Control undamaged G-quadruplex
Q4-Tg	5′-FAM-TTAGGGTTAGGGT(Tg)AGGGTTAGGGTT-BHQ1-3′	G-quadruplex with Tg at 14th position (loop region)
Q4-aPu-Tg	5′-TTAGGGTTAGGG(aPu)(Tg)AGGGTTAGGGTT-3′	G-quadruplex with Tg at 14th position and aPu located on 3′ or 5′ side of damage
Q4-Tg-aPu	5′-TTAGGGTTAGGGT(Tg)(aPu)GGGTTAGGGTT-3′
Q4-oxoG	5′-FAM-TTAGGGTTAGGGTTAG(oxoG)GTTAGGGTT-BHQ1-3′	G-quadruplex with oxoG at 17th position (in middle of GGG)
Q4-aPu-oxoG	5′-TTAGGGTTAGGGTTA(aPu)(oxoG)GTTAGGGTT-3′	G-quadruplex with oxoG at 17th position and aPu located on 3′ or 5′ side of damage
Q4-oxoG-aPu	5′-TTAGGGTTAGGGTTAG(oxoG)(aPu)TTAGGGTT-3′
Type I Tg/A	5′-FAM- GCTCA(Tg)GTACAGAGCTG-3′	Control duplex with Tg; FAM and BHQ1 are located on one side of duplex
	3′-BHQ1-CGAGT A CATGTCTCGAC-5′
Type II Tg/A	5′-FAM-GCTCA(Tg)GTACAGAGCTG-3′	Control duplex with Tg; FAM and BHQ1 are located on opposite sides of duplex
	3′-   CGAGT A CATGTCTCGAC-BHQ1-5′
Type I oxoG/C	5′-FAM- GCTCA(oxoG)GTACAGAGCTG-3′	Control duplex with oxoG; FAM and BHQ1 are located on one side of duplex
	3′-BHQ1-CGAGT C CATGTCTCGAC-5′
Type II oxoG/C	5′-FAM-GCTCA(oxoG)GTACAGAGCTG-3′	Control duplex with oxoG; FAM and BHQ1 are located on opposite sides of duplex
	3′-  CGAGT C CATGTCTCGAC-BHQ1-5′
C/G	5′-GCTCACGTACAGAGCTG-3′	Control duplex without damage
	3′-CGAGTGCATGTCTCGAC-FAM-5′
F/G	5′-GCTCA(F)GTACAGAGCTG-3′	Control duplex containing tetrahydrofuran (F) residue resembling abasic site, uncleavable by DNA glycosylases
	3′-CGAGT G CATGTCTCGAC-FAM-5′
X/G	5′-FAM-GCGCATACGGCATXATCAGGGAAGTGGG-BHQ1-3′	Duplexes, X = oxoG or Tg
	3′-  CGCGTATGCCGTAGTAGTCCCTTCACCC-5′
X/-Δ1	5′-FAM-GCGCATACGGCATXATCAGGGAAGTGGG-BHQ1-3′	Bulge in damaged strand, X = oxoG or Tg
	3′-  CGCGTATGCCGTA-TAGTCCCTTCACCC-5′
X/-Δ2(5′)	5′-FAM-GCGCATACGGCATXATCAGGGAAGTGGG-BHQ1-3′
	3′-  CGCGTATGCCGT–TAGTCCCTTCACCC-5′
X/-Δ2(3′)	5′-FAM-GCGCATACGGCATXATCAGGGAAGTGGG-BHQ1-3′
	3′-  CGCGTATGCCGTA–AGTCCCTTCACCC-5′
X/-Δ3	5′-FAM-GCGCATACGGCATXATCAGGGAAGTGGG-BHQ1-3′
	3′-  CGCGTATGCCGT—AGTCCCTTCACCC-5′
X/-Δ5	5′-FAM-GCGCATACGGCATXATCAGGGAAGTGGG-BHQ1-3′
	3′-  CGCGTATGCCG—–GTCCCTTCACCC-5′
X/+Δ3	5′-FAM-GCGCATACGGCAT-X-ATCAGGGAAGTGGG-BHQ1-3′	Bulge in undamaged strand, X = oxoG or Tg
	3′-  CGCGTATGCCGTAGGGTAGTCCCTTCACCC-5′
X/+Δ4(5′)	5′-FAM-GCGCATACGGCAT-X–ATCAGGGAAGTGGG-BHQ1-3′
	3′-  CGCGTATGCCGTAGGGCTAGTCCCTTCACCC-5′
X/+Δ4(3′)	5′-FAM-GCGCATACGGCAT-X–ATCAGGGAAGTGGG-BHQ1-3′
	3′-  CGCGTATGCCGTACGGGTAGTCCCTTCACCC-5′
X/+Δ5	5′-FAM-GCGCATACGGCAT–X–ATCAGGGAAGTGGG-BHQ1-3′
	3′-  CGCGTATGCCGTACGGGCTAGTCCCTTCACCC-5′
X/+Δ7	5′-FAM-GCGCATACGGCAT—X—ATCAGGGAAGTGGG-BHQ1-3′
	3′-  CGCGTATGCCGTACCGGGCCTAGTCCCTTCACCC-5′

^aaPu is fluorescent base 2-aminopurine, BHQ1 is black hole quencher, FAM is 6-carboxyfluorescein, oxoG is 8-oxoguanine, and Tg is thymine glycol.