Strain Fitness in Pseudomonas simiae WCS417 around PS417_05330

Experiment: soil sample 4; outgrowth in LB

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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 ntPS417_05320 and PS417_05325 are separated by 50 nucleotidesPS417_05325 and PS417_05330 are separated by 97 nucleotidesPS417_05330 and PS417_05335 overlap by 4 nucleotidesPS417_05335 and PS417_05340 are separated by 21 nucleotides PS417_05320: PS417_05320 - fimbria A protein, at 1,182,487 to 1,183,008 _05320 PS417_05325: PS417_05325 - fimbrial protein, at 1,183,059 to 1,183,619 _05325 PS417_05330: PS417_05330 - fimbrial assembly protein, at 1,183,717 to 1,186,242 _05330 PS417_05335: PS417_05335 - molecular chaperone, at 1,186,239 to 1,187,000 _05335 PS417_05340: PS417_05340 - fimbrial protein, at 1,187,022 to 1,187,594 _05340 Position (kb) 1183 1184 1185 1186 1187Strain fitness (log2 ratio) -2 -1 0 1 2 3at 1182.907 kb on - strand, within PS417_05320at 1182.928 kb on + strand, within PS417_05320at 1182.929 kb on - strand, within PS417_05320at 1182.929 kb on - strand, within PS417_05320at 1182.932 kb on + strand, within PS417_05320at 1182.932 kb on + strand, within PS417_05320at 1182.932 kb on + strand, within PS417_05320at 1182.933 kb on - strand, within PS417_05320at 1182.933 kb on - strand, within PS417_05320at 1183.001 kb on - strandat 1183.026 kb on + strandat 1183.064 kb on + strandat 1183.064 kb on + strandat 1183.064 kb on + strandat 1183.065 kb on - strandat 1183.073 kb on - strandat 1183.116 kb on - strand, within PS417_05325at 1183.263 kb on - strand, within PS417_05325at 1183.448 kb on + strand, within PS417_05325at 1183.448 kb on + strand, within PS417_05325at 1183.449 kb on - strand, within PS417_05325at 1183.611 kb on + strandat 1183.612 kb on - strandat 1183.740 kb on + strandat 1183.741 kb on - strandat 1183.743 kb on + strandat 1183.809 kb on + strandat 1183.826 kb on - strandat 1183.826 kb on - strandat 1183.857 kb on + strandat 1183.977 kb on + strand, within PS417_05330at 1183.977 kb on + strand, within PS417_05330at 1183.977 kb on + strand, within PS417_05330at 1183.978 kb on - strand, within PS417_05330at 1183.978 kb on - strand, within PS417_05330at 1183.978 kb on - strand, within PS417_05330at 1183.978 kb on - strand, within PS417_05330at 1183.978 kb on - strand, within PS417_05330at 1184.083 kb on + strand, within PS417_05330at 1184.158 kb on + strand, within PS417_05330at 1184.159 kb on - strand, within PS417_05330at 1184.159 kb on - strand, within PS417_05330at 1184.159 kb on - strand, within PS417_05330at 1184.208 kb on + strand, within PS417_05330at 1184.338 kb on + strand, within PS417_05330at 1184.338 kb on + strand, within PS417_05330at 1184.338 kb on + strand, within PS417_05330at 1184.339 kb on - strand, within PS417_05330at 1184.339 kb on - strand, within PS417_05330at 1184.378 kb on + strand, within PS417_05330at 1184.392 kb on + strand, within PS417_05330at 1184.399 kb on - strand, within PS417_05330at 1184.427 kb on + strand, within PS417_05330at 1184.554 kb on + strand, within PS417_05330at 1184.716 kb on + strand, within PS417_05330at 1184.716 kb on + strand, within PS417_05330at 1184.822 kb on - strand, within PS417_05330at 1184.822 kb on - strand, within PS417_05330at 1184.832 kb on + strand, within PS417_05330at 1184.832 kb on + strand, within PS417_05330at 1184.848 kb on + strand, within PS417_05330at 1184.849 kb on - strand, within PS417_05330at 1184.975 kb on - strand, within PS417_05330at 1185.061 kb on + strand, within PS417_05330at 1185.061 kb on + strand, within PS417_05330at 1185.167 kb on - strand, within PS417_05330at 1185.169 kb on - strand, within PS417_05330at 1185.238 kb on + strand, within PS417_05330at 1185.238 kb on + strand, within PS417_05330at 1185.239 kb on - strand, within PS417_05330at 1185.239 kb on - strandat 1185.239 kb on - strand, within PS417_05330at 1185.286 kb on + strandat 1185.334 kb on + strand, within PS417_05330at 1185.355 kb on + strand, within PS417_05330at 1185.356 kb on - strand, within PS417_05330at 1185.356 kb on - strand, within PS417_05330at 1185.356 kb on - strand, within PS417_05330at 1185.486 kb on + strand, within PS417_05330at 1185.487 kb on - strand, within PS417_05330at 1185.487 kb on - strand, within PS417_05330at 1185.489 kb on + strand, within PS417_05330at 1185.489 kb on + strand, within PS417_05330at 1185.489 kb on + strand, within PS417_05330at 1185.489 kb on + strand, within PS417_05330at 1185.490 kb on - strand, within PS417_05330at 1185.490 kb on - strand, within PS417_05330at 1185.490 kb on - strand, within PS417_05330at 1185.490 kb on - strand, within PS417_05330at 1185.490 kb on - strand, within PS417_05330at 1185.529 kb on + strand, within PS417_05330at 1185.661 kb on - strand, within PS417_05330at 1186.033 kb on + strandat 1186.466 kb on - strand, within PS417_05335at 1186.567 kb on - strand, within PS417_05335at 1186.569 kb on + strand, within PS417_05335at 1186.569 kb on + strand, within PS417_05335at 1186.570 kb on - strand, within PS417_05335at 1186.644 kb on - strand, within PS417_05335at 1186.751 kb on + strand, within PS417_05335at 1186.758 kb on - strand, within PS417_05335at 1186.764 kb on + strand, within PS417_05335at 1186.764 kb on + strandat 1186.765 kb on - strand, within PS417_05335at 1186.765 kb on - strand, within PS417_05335at 1186.765 kb on - strand, within PS417_05335at 1186.765 kb on - strand, within PS417_05335at 1186.767 kb on + strand, within PS417_05335at 1186.767 kb on + strand, within PS417_05335at 1186.768 kb on - strand, within PS417_05335at 1186.768 kb on - strand, within PS417_05335at 1186.768 kb on - strand, within PS417_05335at 1186.879 kb on + strand, within PS417_05335at 1186.880 kb on - strand, within PS417_05335at 1186.906 kb on - strand, within PS417_05335at 1186.956 kb on - strandat 1186.999 kb on - strandat 1186.999 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction soil sample 4; outgrowth in LB
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1,182,907 - PS417_05320 0.80 -0.0
1,182,928 + PS417_05320 0.84 -1.7
1,182,929 - PS417_05320 0.85 -0.0
1,182,929 - PS417_05320 0.85 +0.1
1,182,932 + PS417_05320 0.85 -0.1
1,182,932 + PS417_05320 0.85 -0.6
1,182,932 + PS417_05320 0.85 -0.4
1,182,933 - PS417_05320 0.85 -0.9
1,182,933 - PS417_05320 0.85 -1.2
1,183,001 - -0.0
1,183,026 + -0.4
1,183,064 + +0.1
1,183,064 + -0.6
1,183,064 + -1.6
1,183,065 - +1.0
1,183,073 - -0.1
1,183,116 - PS417_05325 0.10 +0.3
1,183,263 - PS417_05325 0.36 -0.1
1,183,448 + PS417_05325 0.69 +0.2
1,183,448 + PS417_05325 0.69 -1.9
1,183,449 - PS417_05325 0.70 -1.6
1,183,611 + +0.5
1,183,612 - -0.3
1,183,740 + +0.1
1,183,741 - -0.4
1,183,743 + -0.7
1,183,809 + +0.1
1,183,826 - +2.4
1,183,826 - +0.9
1,183,857 + +1.4
1,183,977 + PS417_05330 0.10 -0.0
1,183,977 + PS417_05330 0.10 +2.0
1,183,977 + PS417_05330 0.10 -0.5
1,183,978 - PS417_05330 0.10 +0.2
1,183,978 - PS417_05330 0.10 +0.7
1,183,978 - PS417_05330 0.10 +0.2
1,183,978 - PS417_05330 0.10 -2.1
1,183,978 - PS417_05330 0.10 -1.8
1,184,083 + PS417_05330 0.14 +0.5
1,184,158 + PS417_05330 0.17 -0.5
1,184,159 - PS417_05330 0.17 -1.2
1,184,159 - PS417_05330 0.17 +0.0
1,184,159 - PS417_05330 0.17 -0.5
1,184,208 + PS417_05330 0.19 +0.7
1,184,338 + PS417_05330 0.25 +0.5
1,184,338 + PS417_05330 0.25 -1.6
1,184,338 + PS417_05330 0.25 +0.3
1,184,339 - PS417_05330 0.25 +0.7
1,184,339 - PS417_05330 0.25 +0.2
1,184,378 + PS417_05330 0.26 +1.0
1,184,392 + PS417_05330 0.27 +0.6
1,184,399 - PS417_05330 0.27 -0.4
1,184,427 + PS417_05330 0.28 +1.0
1,184,554 + PS417_05330 0.33 -0.4
1,184,716 + PS417_05330 0.40 -0.8
1,184,716 + PS417_05330 0.40 +0.7
1,184,822 - PS417_05330 0.44 -1.5
1,184,822 - PS417_05330 0.44 -0.1
1,184,832 + PS417_05330 0.44 -1.4
1,184,832 + PS417_05330 0.44 +0.3
1,184,848 + PS417_05330 0.45 -0.6
1,184,849 - PS417_05330 0.45 -0.6
1,184,975 - PS417_05330 0.50 -0.4
1,185,061 + PS417_05330 0.53 +0.4
1,185,061 + PS417_05330 0.53 +0.8
1,185,167 - PS417_05330 0.57 +1.1
1,185,169 - PS417_05330 0.57 -0.1
1,185,238 + PS417_05330 0.60 +0.5
1,185,238 + PS417_05330 0.60 +0.3
1,185,239 - PS417_05330 0.60 +0.1
1,185,239 - +2.9
1,185,239 - PS417_05330 0.60 -0.8
1,185,286 + +0.4
1,185,334 + PS417_05330 0.64 -0.5
1,185,355 + PS417_05330 0.65 +0.1
1,185,356 - PS417_05330 0.65 -1.6
1,185,356 - PS417_05330 0.65 -0.6
1,185,356 - PS417_05330 0.65 +0.7
1,185,486 + PS417_05330 0.70 -0.7
1,185,487 - PS417_05330 0.70 +0.4
1,185,487 - PS417_05330 0.70 -0.9
1,185,489 + PS417_05330 0.70 -1.1
1,185,489 + PS417_05330 0.70 -2.4
1,185,489 + PS417_05330 0.70 +0.6
1,185,489 + PS417_05330 0.70 +1.4
1,185,490 - PS417_05330 0.70 +0.6
1,185,490 - PS417_05330 0.70 +0.5
1,185,490 - PS417_05330 0.70 +0.3
1,185,490 - PS417_05330 0.70 +0.8
1,185,490 - PS417_05330 0.70 +0.5
1,185,529 + PS417_05330 0.72 +0.3
1,185,661 - PS417_05330 0.77 -1.1
1,186,033 + -0.2
1,186,466 - PS417_05335 0.30 -1.5
1,186,567 - PS417_05335 0.43 -0.5
1,186,569 + PS417_05335 0.43 +0.0
1,186,569 + PS417_05335 0.43 -1.4
1,186,570 - PS417_05335 0.43 -0.3
1,186,644 - PS417_05335 0.53 +1.1
1,186,751 + PS417_05335 0.67 -0.2
1,186,758 - PS417_05335 0.68 -0.2
1,186,764 + PS417_05335 0.69 +0.4
1,186,764 + -0.1
1,186,765 - PS417_05335 0.69 +0.2
1,186,765 - PS417_05335 0.69 -2.6
1,186,765 - PS417_05335 0.69 -1.2
1,186,765 - PS417_05335 0.69 +1.7
1,186,767 + PS417_05335 0.69 -1.3
1,186,767 + PS417_05335 0.69 -0.4
1,186,768 - PS417_05335 0.69 +0.6
1,186,768 - PS417_05335 0.69 -1.4
1,186,768 - PS417_05335 0.69 -0.3
1,186,879 + PS417_05335 0.84 +1.3
1,186,880 - PS417_05335 0.84 -0.5
1,186,906 - PS417_05335 0.88 +0.1
1,186,956 - +2.8
1,186,999 - +1.2
1,186,999 - -0.2

Or see this region's nucleotide sequence