Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.540.1

Experiment: Citric Acid 10mM (C)

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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 ntXcc-8004.538.1 and Xcc-8004.540.1 are separated by 2 nucleotidesXcc-8004.540.1 and Xcc-8004.541.1 overlap by 4 nucleotides Xcc-8004.538.1: Xcc-8004.538.1 - 1,4-alpha-glucan (glycogen) branching enzyme, GH-13-type (EC 2.4.1.18), at 495,754 to 497,988 Xcc-8004.538.1 Xcc-8004.540.1: Xcc-8004.540.1 - Malto-oligosyltrehalose trehalohydrolase (EC 3.2.1.141), at 497,991 to 499,748 Xcc-8004.540.1 Xcc-8004.541.1: Xcc-8004.541.1 - 4-alpha-glucanotransferase (amylomaltase) (EC 2.4.1.25), at 499,745 to 501,676 Xcc-8004.541.1 Position (kb) 497 498 499 500Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 496.996 kb on + strand, within Xcc-8004.538.1at 496.996 kb on + strand, within Xcc-8004.538.1at 496.996 kb on + strand, within Xcc-8004.538.1at 496.997 kb on - strand, within Xcc-8004.538.1at 496.997 kb on - strand, within Xcc-8004.538.1at 496.997 kb on - strand, within Xcc-8004.538.1at 497.042 kb on - strand, within Xcc-8004.538.1at 497.042 kb on - strand, within Xcc-8004.538.1at 497.239 kb on - strand, within Xcc-8004.538.1at 497.281 kb on + strand, within Xcc-8004.538.1at 497.281 kb on + strand, within Xcc-8004.538.1at 497.281 kb on + strand, within Xcc-8004.538.1at 497.281 kb on + strand, within Xcc-8004.538.1at 497.281 kb on + strand, within Xcc-8004.538.1at 497.281 kb on + strand, within Xcc-8004.538.1at 497.281 kb on + strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.282 kb on - strand, within Xcc-8004.538.1at 497.344 kb on + strand, within Xcc-8004.538.1at 497.344 kb on + strand, within Xcc-8004.538.1at 497.345 kb on - strand, within Xcc-8004.538.1at 497.345 kb on - strand, within Xcc-8004.538.1at 497.464 kb on + strand, within Xcc-8004.538.1at 497.464 kb on + strand, within Xcc-8004.538.1at 497.465 kb on - strand, within Xcc-8004.538.1at 497.651 kb on - strand, within Xcc-8004.538.1at 497.651 kb on - strand, within Xcc-8004.538.1at 497.651 kb on - strand, within Xcc-8004.538.1at 497.844 kb on + strandat 497.844 kb on + strandat 497.968 kb on + strandat 497.969 kb on - strandat 497.969 kb on - strandat 497.969 kb on - strandat 498.285 kb on + strand, within Xcc-8004.540.1at 498.339 kb on + strand, within Xcc-8004.540.1at 498.339 kb on + strand, within Xcc-8004.540.1at 498.339 kb on + strand, within Xcc-8004.540.1at 498.339 kb on + strand, within Xcc-8004.540.1at 498.339 kb on + strand, within Xcc-8004.540.1at 498.339 kb on + strand, within Xcc-8004.540.1at 498.339 kb on + strand, within Xcc-8004.540.1at 498.340 kb on - strand, within Xcc-8004.540.1at 498.340 kb on - strand, within Xcc-8004.540.1at 498.340 kb on - strand, within Xcc-8004.540.1at 498.471 kb on + strand, within Xcc-8004.540.1at 498.472 kb on - strand, within Xcc-8004.540.1at 498.507 kb on + strand, within Xcc-8004.540.1at 498.508 kb on - strand, within Xcc-8004.540.1at 498.585 kb on + strand, within Xcc-8004.540.1at 498.585 kb on + strand, within Xcc-8004.540.1at 498.585 kb on + strand, within Xcc-8004.540.1at 498.585 kb on + strand, within Xcc-8004.540.1at 498.585 kb on + strand, within Xcc-8004.540.1at 498.586 kb on - strand, within Xcc-8004.540.1at 498.586 kb on - strand, within Xcc-8004.540.1at 498.586 kb on - strand, within Xcc-8004.540.1at 498.586 kb on - strand, within Xcc-8004.540.1at 498.586 kb on - strand, within Xcc-8004.540.1at 498.586 kb on - strand, within Xcc-8004.540.1at 498.609 kb on - strand, within Xcc-8004.540.1at 498.609 kb on - strand, within Xcc-8004.540.1at 498.609 kb on - strand, within Xcc-8004.540.1at 498.612 kb on + strand, within Xcc-8004.540.1at 498.612 kb on + strand, within Xcc-8004.540.1at 498.612 kb on + strand, within Xcc-8004.540.1at 498.613 kb on - strand, within Xcc-8004.540.1at 498.613 kb on - strand, within Xcc-8004.540.1at 498.613 kb on - strand, within Xcc-8004.540.1at 498.625 kb on - strand, within Xcc-8004.540.1at 498.705 kb on + strand, within Xcc-8004.540.1at 498.705 kb on + strand, within Xcc-8004.540.1at 498.705 kb on + strand, within Xcc-8004.540.1at 498.705 kb on + strand, within Xcc-8004.540.1at 498.741 kb on + strand, within Xcc-8004.540.1at 498.741 kb on + strand, within Xcc-8004.540.1at 498.741 kb on + strand, within Xcc-8004.540.1at 498.803 kb on + strand, within Xcc-8004.540.1at 498.803 kb on + strand, within Xcc-8004.540.1at 498.904 kb on - strand, within Xcc-8004.540.1at 498.972 kb on + strand, within Xcc-8004.540.1at 498.972 kb on + strand, within Xcc-8004.540.1at 498.972 kb on + strand, within Xcc-8004.540.1at 498.972 kb on + strand, within Xcc-8004.540.1at 498.973 kb on - strand, within Xcc-8004.540.1at 498.973 kb on - strand, within Xcc-8004.540.1at 498.973 kb on - strand, within Xcc-8004.540.1at 498.975 kb on + strand, within Xcc-8004.540.1at 498.975 kb on + strand, within Xcc-8004.540.1at 498.975 kb on + strand, within Xcc-8004.540.1at 498.975 kb on + strand, within Xcc-8004.540.1at 498.975 kb on + strand, within Xcc-8004.540.1at 498.975 kb on + strand, within Xcc-8004.540.1at 498.975 kb on + strand, within Xcc-8004.540.1at 498.976 kb on - strand, within Xcc-8004.540.1at 498.976 kb on - strand, within Xcc-8004.540.1at 498.976 kb on - strand, within Xcc-8004.540.1at 499.038 kb on + strand, within Xcc-8004.540.1at 499.103 kb on + strand, within Xcc-8004.540.1at 499.103 kb on + strand, within Xcc-8004.540.1at 499.104 kb on - strand, within Xcc-8004.540.1at 499.104 kb on - strand, within Xcc-8004.540.1at 499.104 kb on - strand, within Xcc-8004.540.1at 499.104 kb on - strand, within Xcc-8004.540.1at 499.611 kb on - strandat 499.611 kb on - strandat 499.611 kb on - strandat 499.686 kb on - strandat 499.731 kb on + strandat 499.732 kb on - strandat 499.750 kb on + strandat 499.750 kb on + strandat 499.751 kb on - strandat 499.751 kb on - strandat 499.751 kb on - strandat 499.751 kb on - strandat 500.088 kb on - strand, within Xcc-8004.541.1at 500.210 kb on + strand, within Xcc-8004.541.1at 500.210 kb on + strand, within Xcc-8004.541.1at 500.210 kb on + strand, within Xcc-8004.541.1at 500.211 kb on - strand, within Xcc-8004.541.1at 500.211 kb on - strand, within Xcc-8004.541.1at 500.348 kb on + strand, within Xcc-8004.541.1at 500.349 kb on - strand, within Xcc-8004.541.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Citric Acid 10mM (C)
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496,996 + Xcc-8004.538.1 0.56 -0.4
496,996 + Xcc-8004.538.1 0.56 -1.8
496,996 + Xcc-8004.538.1 0.56 -0.6
496,997 - Xcc-8004.538.1 0.56 -1.8
496,997 - Xcc-8004.538.1 0.56 +1.1
496,997 - Xcc-8004.538.1 0.56 +1.5
497,042 - Xcc-8004.538.1 0.58 -0.2
497,042 - Xcc-8004.538.1 0.58 -1.6
497,239 - Xcc-8004.538.1 0.66 -0.0
497,281 + Xcc-8004.538.1 0.68 +0.8
497,281 + Xcc-8004.538.1 0.68 -0.9
497,281 + Xcc-8004.538.1 0.68 -1.5
497,281 + Xcc-8004.538.1 0.68 -1.5
497,281 + Xcc-8004.538.1 0.68 -1.3
497,281 + Xcc-8004.538.1 0.68 -3.4
497,281 + Xcc-8004.538.1 0.68 -1.4
497,282 - Xcc-8004.538.1 0.68 -2.9
497,282 - Xcc-8004.538.1 0.68 +2.4
497,282 - Xcc-8004.538.1 0.68 +1.4
497,282 - Xcc-8004.538.1 0.68 +0.7
497,282 - Xcc-8004.538.1 0.68 +1.4
497,282 - Xcc-8004.538.1 0.68 -0.8
497,282 - Xcc-8004.538.1 0.68 +0.6
497,282 - Xcc-8004.538.1 0.68 -1.3
497,282 - Xcc-8004.538.1 0.68 -1.2
497,282 - Xcc-8004.538.1 0.68 -1.8
497,344 + Xcc-8004.538.1 0.71 -2.4
497,344 + Xcc-8004.538.1 0.71 +0.8
497,345 - Xcc-8004.538.1 0.71 +0.6
497,345 - Xcc-8004.538.1 0.71 +1.2
497,464 + Xcc-8004.538.1 0.77 -1.0
497,464 + Xcc-8004.538.1 0.77 -0.9
497,465 - Xcc-8004.538.1 0.77 -0.4
497,651 - Xcc-8004.538.1 0.85 -1.9
497,651 - Xcc-8004.538.1 0.85 -2.5
497,651 - Xcc-8004.538.1 0.85 -0.8
497,844 + -3.2
497,844 + -1.5
497,968 + -2.3
497,969 - -1.6
497,969 - -2.6
497,969 - +1.1
498,285 + Xcc-8004.540.1 0.17 -1.6
498,339 + Xcc-8004.540.1 0.20 -1.5
498,339 + Xcc-8004.540.1 0.20 -1.5
498,339 + Xcc-8004.540.1 0.20 +1.3
498,339 + Xcc-8004.540.1 0.20 -1.2
498,339 + Xcc-8004.540.1 0.20 -2.6
498,339 + Xcc-8004.540.1 0.20 +0.2
498,339 + Xcc-8004.540.1 0.20 -2.7
498,340 - Xcc-8004.540.1 0.20 -1.9
498,340 - Xcc-8004.540.1 0.20 -0.6
498,340 - Xcc-8004.540.1 0.20 -1.3
498,471 + Xcc-8004.540.1 0.27 -1.0
498,472 - Xcc-8004.540.1 0.27 -2.2
498,507 + Xcc-8004.540.1 0.29 +0.4
498,508 - Xcc-8004.540.1 0.29 -3.0
498,585 + Xcc-8004.540.1 0.34 -1.3
498,585 + Xcc-8004.540.1 0.34 -0.6
498,585 + Xcc-8004.540.1 0.34 -0.8
498,585 + Xcc-8004.540.1 0.34 -1.1
498,585 + Xcc-8004.540.1 0.34 -0.6
498,586 - Xcc-8004.540.1 0.34 +2.1
498,586 - Xcc-8004.540.1 0.34 -1.5
498,586 - Xcc-8004.540.1 0.34 -2.3
498,586 - Xcc-8004.540.1 0.34 -1.5
498,586 - Xcc-8004.540.1 0.34 -0.3
498,586 - Xcc-8004.540.1 0.34 -0.6
498,609 - Xcc-8004.540.1 0.35 -2.6
498,609 - Xcc-8004.540.1 0.35 -1.5
498,609 - Xcc-8004.540.1 0.35 +1.8
498,612 + Xcc-8004.540.1 0.35 +1.8
498,612 + Xcc-8004.540.1 0.35 -3.6
498,612 + Xcc-8004.540.1 0.35 +0.8
498,613 - Xcc-8004.540.1 0.35 -2.1
498,613 - Xcc-8004.540.1 0.35 +0.0
498,613 - Xcc-8004.540.1 0.35 -0.6
498,625 - Xcc-8004.540.1 0.36 +1.0
498,705 + Xcc-8004.540.1 0.41 -1.2
498,705 + Xcc-8004.540.1 0.41 -3.1
498,705 + Xcc-8004.540.1 0.41 -1.2
498,705 + Xcc-8004.540.1 0.41 +1.1
498,741 + Xcc-8004.540.1 0.43 -0.6
498,741 + Xcc-8004.540.1 0.43 -3.8
498,741 + Xcc-8004.540.1 0.43 -2.4
498,803 + Xcc-8004.540.1 0.46 -2.4
498,803 + Xcc-8004.540.1 0.46 -1.1
498,904 - Xcc-8004.540.1 0.52 -1.8
498,972 + Xcc-8004.540.1 0.56 -1.2
498,972 + Xcc-8004.540.1 0.56 -2.9
498,972 + Xcc-8004.540.1 0.56 -0.7
498,972 + Xcc-8004.540.1 0.56 -1.8
498,973 - Xcc-8004.540.1 0.56 +0.8
498,973 - Xcc-8004.540.1 0.56 -0.7
498,973 - Xcc-8004.540.1 0.56 -2.1
498,975 + Xcc-8004.540.1 0.56 -3.7
498,975 + Xcc-8004.540.1 0.56 -1.6
498,975 + Xcc-8004.540.1 0.56 +0.1
498,975 + Xcc-8004.540.1 0.56 -2.0
498,975 + Xcc-8004.540.1 0.56 -2.1
498,975 + Xcc-8004.540.1 0.56 -0.4
498,975 + Xcc-8004.540.1 0.56 +1.8
498,976 - Xcc-8004.540.1 0.56 +0.3
498,976 - Xcc-8004.540.1 0.56 -1.6
498,976 - Xcc-8004.540.1 0.56 -1.7
499,038 + Xcc-8004.540.1 0.60 -1.2
499,103 + Xcc-8004.540.1 0.63 -3.0
499,103 + Xcc-8004.540.1 0.63 -2.2
499,104 - Xcc-8004.540.1 0.63 -1.8
499,104 - Xcc-8004.540.1 0.63 -2.9
499,104 - Xcc-8004.540.1 0.63 -0.4
499,104 - Xcc-8004.540.1 0.63 -1.3
499,611 - -1.5
499,611 - -1.2
499,611 - -0.0
499,686 - -2.5
499,731 + -3.2
499,732 - -0.5
499,750 + -1.2
499,750 + -1.1
499,751 - -1.3
499,751 - +0.2
499,751 - +0.8
499,751 - +0.3
500,088 - Xcc-8004.541.1 0.18 +0.7
500,210 + Xcc-8004.541.1 0.24 -0.9
500,210 + Xcc-8004.541.1 0.24 -0.9
500,210 + Xcc-8004.541.1 0.24 -0.8
500,211 - Xcc-8004.541.1 0.24 -0.6
500,211 - Xcc-8004.541.1 0.24 +0.9
500,348 + Xcc-8004.541.1 0.31 -2.7
500,349 - Xcc-8004.541.1 0.31 -0.4

Or see this region's nucleotide sequence