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Table 4 Sequence similarity of cucumber PlasTi-microarray probes to plastid genomes of other plants

From: A tiling microarray for global analysis of chloroplast genome expression in cucumber and other plants

Organism PlasTi- microarray probes matching target plastid genome with E < 1 × 10-3 PlasTi- microarray probes matching target plastid genome with E ≤ 1 × 10-10
  All SC coding SC non-coding IR coding IR non-coding  
C.sa 1629 262 1062 53 252 1629
A.tha 1188 (72.9%) 246 (93.9%) 638 (60.1%) 53 (100%) 251 (99.6%) 1035 (63.5%)
N.tab 1253 (76.9%) 250 (95.4%) 706 (66.5%) 53 (100%) 244 (96.8%) 1108 (68.0%)
S.lyc 1212 (74.4%) 250 (95.4%) 666 (62.7%) 53 (100%) 243 (96.4%) 1086 (66.7%)
S.ole 927 (56.9%) 214 (81.7%) 470 (44.3%) 49 (92.5%) 194 (77.0%) 807 (49.5%)
L.sat 1225 (75.2%) 252 (96.2%) 682 (64.2%) 52 (98.1%) 239 (94.8%) 1078 (66.2%)
M.tru 1101 (67.6%) 238 (90.8%) 615 (57.9%) 52 (98.1%) 196 (77.8%) 944 (57.9%)
L.jap 1164 (71.4%) 247 (94.3%) 625 (58.9%) 52 (98.1%) 240 (95.2%) 1032 (63.4%)
P.tri 1287 (79.0%) 245 (93.5%) 740 (69.7%) 53 (100%) 249 (98.8%) 1142 (70.1%)
H.vul 927 (56.9%) 219 (83.6%) 474 (44.6%) 49 (92.5%) 185 (73.4%) 802 (49.2.%)
  1. Each probe was used as a query in a blastn search against each plastid genome, with the E value threshold set at 1 × 10-3. C.sa - Cucumis sativus [GenBank: NC_007144], A. tha - Arabidopsis thaliana [GenBank: NC_000932], N.tab - Nicotiana tabacum [GenBank: NC_001879], S.lyc - Solanum lycopersicon [GenBank: NC_007898], S.ole - Spinacia oleracea [GenBank: NC_002202], L.sat - Lactuca sativa [GenBank: NC_007578], M.tru - Medicago truncatula [GenBank: NC_003119], L.jap - Lotus japonicus [GenBank: NC_002694], P.tri - Populus trichocarpa [GenBank: NC_009143], H.vul - Hordeum vulgare [GenBank: NC_008590]. For each genome, number of probes matching with E value lower than the threshold as well as number of probes matching with E ≤ 1 × 10-10 is reported.