Figure 1
Alternative alignments of the 8p23.1 DEF locus. (A) July 2003 UCSC version hg16 [10] chr8:6,258,283-8,262,034. Only finished clones are shown and arranged by libraries, which are indicated by background colors: RP11 = gray, bottom; SCb = white, middle; other (CTB, CTD, GS, RP13) = gray, top. Defensin gene clusters are shown as arrows, repeat blocks are indicated as striped boxes, (+) strand is above the black line, (-) strand is below the black line, same stripe patterns indicate similar structures. The light blue background indicates the distal repeat region for chromosomal rearrangements [16]. (B) Revised alignment of the 8p23.1 DEF locus, containing an additional 360-kb-contig and five clones which cannot be aligned; colors: black = aligned as in Fig. 1A; orange = clones not present in the UCSC browser; red = clones with different positions in both alignments, blue = clones presented in the UCSC browser but excluded in the revised assembly. The yellow vertical bar in DEF a illustrates the widening of the DEF cluster a as a result of the alternative alignment of [GenBank:AF200455] / [GenBank:AF238378] (see text). Clone (number) GenBank accession.version / library: (1) [GenBank:AC018398] / RP11, (2) [GenBank:AF287957] / CTD, (3) [GenBank:AF233439] / GS, CTD, (4) [GenBank:AF200455] / SCb, (5) [GenBank:AF238378] / SCb, (6) [GenBank:AF228730] / SCb, CTB, (7) [GenBank:AF215847] / CTB, (8) [GenBank:AC130339] / RP13, (9) [GenBank:AC130360] / RP11, (10) [GenBank:AC130367] / RP11, (11) [GenBank:AC134395] / RP11, (12) [GenBank:AC134683] / RP11, (13) [GenBank:AC285443] / SCb, (14) [GenBank:AC202031] / SCb, (15) [GenBank:AC134684] / RP11, (16) [GenBank:AC084121] / RP11, (17) [GenBank:AC144950] / RP11, (18) [GenBank:AC130365] / RP11, (19) [GenBank:AC131269] / RP11, (20) [GenBank:AC105233] / RP11, (21) [GenBank:AC068020] / RP11, (22) [GenBank:AC068353] / RP11, (23) [GenBank:AF298854] / SCb, (24) [GenBank:AF205406] / SCb, (25) [GenBank:AF314060] / GS, (26) [GenBank:AF314059] / SCb, (27) [GenBank:AF252831] / SCb, (28) [GenBank:AF189745] / SCb, (29) [GenBank:AF252830] / SCb, (30) [GenBank:AC148106] / RP11, (31) [GenBank:AC105214] / RP11, (32) [GenBank:AC092766] / RP11