Strain Fitness in Pseudomonas syringae pv. syringae B728a around Psyr_1108

Experiment: KB with capsaicin 0.25 mg/ml

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntPsyr_1106 and Psyr_1107 are separated by 59 nucleotidesPsyr_1107 and Psyr_1108 are separated by 137 nucleotidesPsyr_1108 and Psyr_1109 are separated by 219 nucleotides Psyr_1106: Psyr_1106 - FecR protein, at 1,253,132 to 1,254,097 _1106 Psyr_1107: Psyr_1107 - Sigma-70 region 2, at 1,254,157 to 1,254,720 _1107 Psyr_1108: Psyr_1108 - glyceraldehyde-3-phosphate dehydrogenase, at 1,254,858 to 1,255,859 _1108 Psyr_1109: Psyr_1109 - 6-phosphogluconate dehydratase, at 1,256,079 to 1,257,905 _1109 Position (kb) 1254 1255 1256Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1254.124 kb on + strandat 1254.131 kb on - strandat 1254.188 kb on - strandat 1254.188 kb on - strandat 1254.188 kb on - strandat 1254.188 kb on - strandat 1254.223 kb on + strand, within Psyr_1107at 1254.223 kb on + strand, within Psyr_1107at 1254.223 kb on + strand, within Psyr_1107at 1254.224 kb on - strand, within Psyr_1107at 1254.266 kb on + strand, within Psyr_1107at 1254.267 kb on - strand, within Psyr_1107at 1254.267 kb on - strand, within Psyr_1107at 1254.267 kb on - strand, within Psyr_1107at 1254.618 kb on + strand, within Psyr_1107at 1254.618 kb on + strand, within Psyr_1107at 1254.618 kb on + strand, within Psyr_1107at 1254.618 kb on + strand, within Psyr_1107at 1254.619 kb on - strand, within Psyr_1107at 1254.619 kb on - strand, within Psyr_1107at 1254.622 kb on + strand, within Psyr_1107at 1254.622 kb on + strand, within Psyr_1107at 1254.622 kb on + strand, within Psyr_1107at 1254.622 kb on + strand, within Psyr_1107at 1254.622 kb on + strand, within Psyr_1107at 1254.622 kb on + strand, within Psyr_1107at 1254.623 kb on - strand, within Psyr_1107at 1254.623 kb on - strand, within Psyr_1107at 1254.623 kb on - strand, within Psyr_1107at 1254.749 kb on - strandat 1254.752 kb on + strandat 1254.752 kb on + strandat 1254.752 kb on + strandat 1254.752 kb on + strandat 1254.752 kb on + strandat 1254.753 kb on - strandat 1254.753 kb on - strandat 1254.753 kb on - strandat 1254.753 kb on - strandat 1254.753 kb on - strandat 1254.859 kb on + strandat 1254.936 kb on + strandat 1254.937 kb on - strandat 1254.937 kb on - strandat 1254.937 kb on - strandat 1254.937 kb on - strandat 1254.937 kb on - strandat 1255.037 kb on - strand, within Psyr_1108at 1255.197 kb on + strand, within Psyr_1108at 1255.282 kb on + strand, within Psyr_1108at 1255.282 kb on + strand, within Psyr_1108at 1255.283 kb on - strand, within Psyr_1108at 1255.312 kb on + strand, within Psyr_1108at 1255.313 kb on - strand, within Psyr_1108at 1255.313 kb on - strand, within Psyr_1108at 1255.313 kb on - strand, within Psyr_1108at 1255.365 kb on + strand, within Psyr_1108at 1255.365 kb on + strand, within Psyr_1108at 1255.365 kb on + strand, within Psyr_1108at 1255.366 kb on - strand, within Psyr_1108at 1255.366 kb on - strand, within Psyr_1108at 1255.366 kb on - strand, within Psyr_1108at 1255.366 kb on - strand, within Psyr_1108at 1255.456 kb on + strand, within Psyr_1108at 1255.457 kb on - strand, within Psyr_1108at 1255.457 kb on - strand, within Psyr_1108at 1255.457 kb on - strand, within Psyr_1108at 1255.457 kb on - strand, within Psyr_1108at 1255.496 kb on + strand, within Psyr_1108at 1255.497 kb on - strand, within Psyr_1108at 1255.581 kb on + strand, within Psyr_1108at 1255.581 kb on + strand, within Psyr_1108at 1255.581 kb on + strand, within Psyr_1108at 1255.582 kb on - strand, within Psyr_1108at 1255.582 kb on - strand, within Psyr_1108at 1255.582 kb on - strand, within Psyr_1108at 1255.582 kb on - strand, within Psyr_1108at 1255.582 kb on - strand, within Psyr_1108at 1255.582 kb on - strand, within Psyr_1108at 1255.582 kb on - strand, within Psyr_1108at 1255.582 kb on - strand, within Psyr_1108at 1255.637 kb on + strand, within Psyr_1108at 1255.637 kb on + strand, within Psyr_1108at 1255.638 kb on - strand, within Psyr_1108at 1255.701 kb on + strand, within Psyr_1108at 1255.702 kb on - strand, within Psyr_1108at 1255.702 kb on - strand, within Psyr_1108at 1255.702 kb on - strand, within Psyr_1108at 1255.702 kb on - strand, within Psyr_1108at 1255.794 kb on - strandat 1255.795 kb on + strandat 1255.795 kb on + strandat 1255.795 kb on + strandat 1255.795 kb on + strandat 1255.795 kb on + strandat 1255.796 kb on - strandat 1255.796 kb on - strandat 1255.796 kb on - strandat 1255.796 kb on - strandat 1255.796 kb on - strandat 1255.796 kb on - strandat 1255.796 kb on - strandat 1255.796 kb on - strandat 1255.806 kb on + strandat 1255.806 kb on + strandat 1255.859 kb on + strandat 1255.859 kb on + strandat 1255.860 kb on - strandat 1255.860 kb on - strandat 1255.959 kb on + strandat 1255.960 kb on - strandat 1256.055 kb on - strandat 1256.062 kb on - strandat 1256.101 kb on + strandat 1256.146 kb on - strandat 1256.298 kb on + strand, within Psyr_1109at 1256.298 kb on + strand, within Psyr_1109at 1256.298 kb on + strand, within Psyr_1109at 1256.299 kb on - strand, within Psyr_1109at 1256.299 kb on - strand, within Psyr_1109at 1256.362 kb on + strand, within Psyr_1109at 1256.363 kb on - strand, within Psyr_1109at 1256.363 kb on - strand, within Psyr_1109at 1256.363 kb on - strand, within Psyr_1109at 1256.507 kb on + strand, within Psyr_1109at 1256.507 kb on + strand, within Psyr_1109at 1256.507 kb on + strand, within Psyr_1109at 1256.507 kb on + strand, within Psyr_1109at 1256.508 kb on - strand, within Psyr_1109at 1256.508 kb on - strand, within Psyr_1109at 1256.508 kb on - strand, within Psyr_1109at 1256.508 kb on - strand, within Psyr_1109at 1256.508 kb on - strand, within Psyr_1109at 1256.508 kb on - strand, within Psyr_1109at 1256.656 kb on + strand, within Psyr_1109at 1256.657 kb on - strand, within Psyr_1109at 1256.828 kb on + strand, within Psyr_1109at 1256.828 kb on + strand, within Psyr_1109at 1256.828 kb on + strand, within Psyr_1109at 1256.828 kb on + strand, within Psyr_1109at 1256.828 kb on + strand, within Psyr_1109at 1256.829 kb on - strand, within Psyr_1109

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Per-strain Table

Position Strand Gene LocusTag Fraction KB with capsaicin 0.25 mg/ml
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1,254,124 + +0.0
1,254,131 - -1.2
1,254,188 - +1.3
1,254,188 - -0.5
1,254,188 - +0.0
1,254,188 - -0.8
1,254,223 + Psyr_1107 0.12 +1.0
1,254,223 + Psyr_1107 0.12 -0.2
1,254,223 + Psyr_1107 0.12 +0.3
1,254,224 - Psyr_1107 0.12 -1.4
1,254,266 + Psyr_1107 0.19 +0.6
1,254,267 - Psyr_1107 0.20 +0.7
1,254,267 - Psyr_1107 0.20 -0.4
1,254,267 - Psyr_1107 0.20 +0.5
1,254,618 + Psyr_1107 0.82 +0.5
1,254,618 + Psyr_1107 0.82 -1.0
1,254,618 + Psyr_1107 0.82 -0.2
1,254,618 + Psyr_1107 0.82 -0.7
1,254,619 - Psyr_1107 0.82 +0.1
1,254,619 - Psyr_1107 0.82 +0.6
1,254,622 + Psyr_1107 0.82 -1.4
1,254,622 + Psyr_1107 0.82 -0.8
1,254,622 + Psyr_1107 0.82 +0.8
1,254,622 + Psyr_1107 0.82 -0.5
1,254,622 + Psyr_1107 0.82 -0.2
1,254,622 + Psyr_1107 0.82 -1.2
1,254,623 - Psyr_1107 0.83 +0.6
1,254,623 - Psyr_1107 0.83 +0.0
1,254,623 - Psyr_1107 0.83 -1.1
1,254,749 - -0.4
1,254,752 + -0.9
1,254,752 + +0.6
1,254,752 + -0.4
1,254,752 + +1.0
1,254,752 + -1.7
1,254,753 - -1.1
1,254,753 - +0.3
1,254,753 - +2.4
1,254,753 - -1.8
1,254,753 - -0.3
1,254,859 + +0.7
1,254,936 + +2.0
1,254,937 - +0.4
1,254,937 - -2.8
1,254,937 - -0.5
1,254,937 - -0.7
1,254,937 - -0.6
1,255,037 - Psyr_1108 0.18 -1.1
1,255,197 + Psyr_1108 0.34 -1.2
1,255,282 + Psyr_1108 0.42 -0.2
1,255,282 + Psyr_1108 0.42 +0.8
1,255,283 - Psyr_1108 0.42 -0.7
1,255,312 + Psyr_1108 0.45 -0.8
1,255,313 - Psyr_1108 0.45 -1.5
1,255,313 - Psyr_1108 0.45 -1.4
1,255,313 - Psyr_1108 0.45 -0.4
1,255,365 + Psyr_1108 0.51 -1.3
1,255,365 + Psyr_1108 0.51 -0.5
1,255,365 + Psyr_1108 0.51 -1.5
1,255,366 - Psyr_1108 0.51 -2.3
1,255,366 - Psyr_1108 0.51 +2.8
1,255,366 - Psyr_1108 0.51 -1.4
1,255,366 - Psyr_1108 0.51 +0.3
1,255,456 + Psyr_1108 0.60 -1.3
1,255,457 - Psyr_1108 0.60 -1.9
1,255,457 - Psyr_1108 0.60 +0.1
1,255,457 - Psyr_1108 0.60 -0.7
1,255,457 - Psyr_1108 0.60 -1.2
1,255,496 + Psyr_1108 0.64 -0.8
1,255,497 - Psyr_1108 0.64 -1.6
1,255,581 + Psyr_1108 0.72 +1.8
1,255,581 + Psyr_1108 0.72 -1.3
1,255,581 + Psyr_1108 0.72 -0.2
1,255,582 - Psyr_1108 0.72 -0.6
1,255,582 - Psyr_1108 0.72 -0.4
1,255,582 - Psyr_1108 0.72 -0.1
1,255,582 - Psyr_1108 0.72 -1.3
1,255,582 - Psyr_1108 0.72 -0.5
1,255,582 - Psyr_1108 0.72 -1.5
1,255,582 - Psyr_1108 0.72 -1.0
1,255,582 - Psyr_1108 0.72 -1.3
1,255,637 + Psyr_1108 0.78 +0.0
1,255,637 + Psyr_1108 0.78 -0.1
1,255,638 - Psyr_1108 0.78 -2.0
1,255,701 + Psyr_1108 0.84 -1.8
1,255,702 - Psyr_1108 0.84 -1.2
1,255,702 - Psyr_1108 0.84 -2.1
1,255,702 - Psyr_1108 0.84 -0.2
1,255,702 - Psyr_1108 0.84 +1.2
1,255,794 - +0.0
1,255,795 + -0.2
1,255,795 + +0.2
1,255,795 + -0.1
1,255,795 + -1.5
1,255,795 + -1.1
1,255,796 - -1.6
1,255,796 - -2.2
1,255,796 - -2.0
1,255,796 - -0.6
1,255,796 - -1.5
1,255,796 - -0.5
1,255,796 - -0.5
1,255,796 - -0.5
1,255,806 + -1.4
1,255,806 + -0.9
1,255,859 + -0.8
1,255,859 + +0.2
1,255,860 - -0.5
1,255,860 - -1.0
1,255,959 + -0.3
1,255,960 - +1.3
1,256,055 - +0.3
1,256,062 - +0.8
1,256,101 + +0.6
1,256,146 - +0.1
1,256,298 + Psyr_1109 0.12 -0.6
1,256,298 + Psyr_1109 0.12 +0.1
1,256,298 + Psyr_1109 0.12 -2.0
1,256,299 - Psyr_1109 0.12 +0.5
1,256,299 - Psyr_1109 0.12 +1.1
1,256,362 + Psyr_1109 0.15 -1.1
1,256,363 - Psyr_1109 0.16 -0.7
1,256,363 - Psyr_1109 0.16 +1.2
1,256,363 - Psyr_1109 0.16 +0.3
1,256,507 + Psyr_1109 0.23 +1.2
1,256,507 + Psyr_1109 0.23 -0.6
1,256,507 + Psyr_1109 0.23 +0.8
1,256,507 + Psyr_1109 0.23 -0.5
1,256,508 - Psyr_1109 0.23 -0.6
1,256,508 - Psyr_1109 0.23 -0.1
1,256,508 - Psyr_1109 0.23 +0.5
1,256,508 - Psyr_1109 0.23 -0.5
1,256,508 - Psyr_1109 0.23 -0.8
1,256,508 - Psyr_1109 0.23 -0.9
1,256,656 + Psyr_1109 0.32 -0.7
1,256,657 - Psyr_1109 0.32 -1.0
1,256,828 + Psyr_1109 0.41 -0.2
1,256,828 + Psyr_1109 0.41 +1.8
1,256,828 + Psyr_1109 0.41 -0.9
1,256,828 + Psyr_1109 0.41 -1.9
1,256,828 + Psyr_1109 0.41 -0.9
1,256,829 - Psyr_1109 0.41 +0.8

Or see this region's nucleotide sequence