Strain Fitness in Erwinia tracheiphila SCR3 around LU632_RS00610

Experiment: plant=Squash; plant sample=QP2; plant location=NA

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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 ntLU632_RS00605 and LU632_RS00610 are separated by 470 nucleotidesLU632_RS00610 and kduD are separated by 42 nucleotideskduD and LU632_RS00620 are separated by 13 nucleotides LU632_RS00605: LU632_RS00605 - IS630 family transposase, at 123,642 to 124,624 _RS00605 LU632_RS00610: LU632_RS00610 - RpiB/LacA/LacB family sugar-phosphate isomerase, at 125,095 to 125,736 _RS00610 LU632_RS00615: kduD - 2-dehydro-3-deoxy-D-gluconate 5-dehydrogenase KduD, at 125,779 to 126,540 kduD LU632_RS00620: LU632_RS00620 - glycoside hydrolase family 88 protein, at 126,554 to 127,693 _RS00620 Position (kb) 125 126Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 124.096 kb on - strand, within LU632_RS00605at 124.118 kb on - strand, within LU632_RS00605at 124.139 kb on + strand, within LU632_RS00605at 124.219 kb on - strand, within LU632_RS00605at 124.219 kb on - strand, within LU632_RS00605at 124.245 kb on - strand, within LU632_RS00605at 124.334 kb on - strand, within LU632_RS00605at 124.622 kb on + strandat 124.667 kb on - strandat 124.845 kb on + strandat 124.845 kb on + strandat 124.846 kb on - strandat 124.849 kb on + strandat 124.869 kb on - strandat 124.950 kb on + strandat 125.040 kb on + strandat 125.042 kb on + strandat 125.042 kb on + strandat 125.042 kb on + strandat 125.043 kb on - strandat 125.043 kb on - strandat 125.043 kb on - strandat 125.043 kb on - strandat 125.047 kb on + strandat 125.048 kb on - strandat 125.048 kb on - strandat 125.063 kb on - strandat 125.065 kb on + strandat 125.068 kb on + strandat 125.151 kb on + strandat 125.231 kb on + strand, within LU632_RS00610at 125.232 kb on - strand, within LU632_RS00610at 125.335 kb on - strand, within LU632_RS00610at 125.354 kb on + strand, within LU632_RS00610at 125.425 kb on - strand, within LU632_RS00610at 125.460 kb on + strand, within LU632_RS00610at 125.461 kb on - strand, within LU632_RS00610at 125.488 kb on + strand, within LU632_RS00610at 125.488 kb on + strand, within LU632_RS00610at 125.489 kb on - strand, within LU632_RS00610at 125.489 kb on - strand, within LU632_RS00610at 125.489 kb on - strand, within LU632_RS00610at 125.489 kb on - strand, within LU632_RS00610at 125.490 kb on + strand, within LU632_RS00610at 125.491 kb on - strand, within LU632_RS00610at 125.491 kb on - strand, within LU632_RS00610at 125.504 kb on - strand, within LU632_RS00610at 125.533 kb on - strand, within LU632_RS00610at 125.536 kb on - strand, within LU632_RS00610at 125.578 kb on - strand, within LU632_RS00610at 125.594 kb on + strand, within LU632_RS00610at 125.595 kb on - strand, within LU632_RS00610at 125.634 kb on + strand, within LU632_RS00610at 125.634 kb on + strand, within LU632_RS00610at 125.635 kb on - strand, within LU632_RS00610at 125.635 kb on - strand, within LU632_RS00610at 125.635 kb on - strand, within LU632_RS00610at 125.639 kb on - strand, within LU632_RS00610at 125.672 kb on - strandat 125.825 kb on - strandat 125.827 kb on - strandat 125.827 kb on - strandat 125.827 kb on - strandat 125.827 kb on - strandat 125.827 kb on - strandat 125.828 kb on + strandat 125.828 kb on + strandat 125.828 kb on + strandat 125.829 kb on - strandat 125.829 kb on - strandat 126.000 kb on + strand, within kduDat 126.000 kb on + strand, within kduDat 126.000 kb on + strand, within kduDat 126.001 kb on - strand, within kduDat 126.005 kb on + strand, within kduDat 126.006 kb on - strand, within kduDat 126.578 kb on + strandat 126.622 kb on + strandat 126.623 kb on - strandat 126.706 kb on + strand, within LU632_RS00620at 126.706 kb on + strand, within LU632_RS00620at 126.706 kb on + strand, within LU632_RS00620at 126.706 kb on + strand, within LU632_RS00620at 126.707 kb on - strand, within LU632_RS00620at 126.707 kb on - strand, within LU632_RS00620at 126.707 kb on - strand, within LU632_RS00620

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Per-strain Table

Position Strand Gene LocusTag Fraction plant=Squash; plant sample=QP2; plant location=NA
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124,096 - LU632_RS00605 0.46 +0.9
124,118 - LU632_RS00605 0.48 -0.1
124,139 + LU632_RS00605 0.51 -0.8
124,219 - LU632_RS00605 0.59 +1.3
124,219 - LU632_RS00605 0.59 -0.1
124,245 - LU632_RS00605 0.61 +1.1
124,334 - LU632_RS00605 0.70 +0.3
124,622 + +0.5
124,667 - -0.9
124,845 + +1.7
124,845 + +0.2
124,846 - -2.8
124,849 + -0.4
124,869 - -0.8
124,950 + -0.1
125,040 + -1.0
125,042 + +0.1
125,042 + -1.8
125,042 + +0.2
125,043 - -0.5
125,043 - -1.3
125,043 - -0.2
125,043 - +0.1
125,047 + -0.2
125,048 - -1.1
125,048 - +0.3
125,063 - -0.7
125,065 + +0.3
125,068 + -1.5
125,151 + +1.5
125,231 + LU632_RS00610 0.21 -0.2
125,232 - LU632_RS00610 0.21 +0.3
125,335 - LU632_RS00610 0.37 -0.6
125,354 + LU632_RS00610 0.40 +0.3
125,425 - LU632_RS00610 0.51 +0.2
125,460 + LU632_RS00610 0.57 +0.8
125,461 - LU632_RS00610 0.57 +0.7
125,488 + LU632_RS00610 0.61 -1.2
125,488 + LU632_RS00610 0.61 +1.8
125,489 - LU632_RS00610 0.61 -1.5
125,489 - LU632_RS00610 0.61 +1.1
125,489 - LU632_RS00610 0.61 -0.6
125,489 - LU632_RS00610 0.61 -0.6
125,490 + LU632_RS00610 0.62 -1.2
125,491 - LU632_RS00610 0.62 -0.1
125,491 - LU632_RS00610 0.62 +0.7
125,504 - LU632_RS00610 0.64 +0.3
125,533 - LU632_RS00610 0.68 +0.2
125,536 - LU632_RS00610 0.69 -0.4
125,578 - LU632_RS00610 0.75 +0.5
125,594 + LU632_RS00610 0.78 -1.5
125,595 - LU632_RS00610 0.78 +0.6
125,634 + LU632_RS00610 0.84 +1.4
125,634 + LU632_RS00610 0.84 -1.5
125,635 - LU632_RS00610 0.84 -0.4
125,635 - LU632_RS00610 0.84 -0.2
125,635 - LU632_RS00610 0.84 +1.0
125,639 - LU632_RS00610 0.85 -0.3
125,672 - +0.7
125,825 - -0.7
125,827 - -1.1
125,827 - +0.6
125,827 - +0.9
125,827 - +0.0
125,827 - -1.9
125,828 + -0.7
125,828 + -0.2
125,828 + -0.9
125,829 - +2.8
125,829 - -0.8
126,000 + kduD LU632_RS00615 0.29 -3.4
126,000 + kduD LU632_RS00615 0.29 -0.4
126,000 + kduD LU632_RS00615 0.29 -1.9
126,001 - kduD LU632_RS00615 0.29 +0.4
126,005 + kduD LU632_RS00615 0.30 -1.0
126,006 - kduD LU632_RS00615 0.30 +1.4
126,578 + -1.6
126,622 + +0.6
126,623 - +1.4
126,706 + LU632_RS00620 0.13 +0.5
126,706 + LU632_RS00620 0.13 +1.1
126,706 + LU632_RS00620 0.13 -1.3
126,706 + LU632_RS00620 0.13 +1.7
126,707 - LU632_RS00620 0.13 +2.5
126,707 - LU632_RS00620 0.13 -0.8
126,707 - LU632_RS00620 0.13 +2.7

Or see this region's nucleotide sequence