Strain Fitness in Variovorax sp. SCN45 around GFF3588

Experiment: M9 with calcium pantothenate 10 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 ntGFF3587 and GFF3588 are separated by 10 nucleotidesGFF3588 and GFF3589 are separated by 85 nucleotides GFF3587 - KEGG: putative spermidine/putrescine transport system ATP-binding protein, at 98,259 to 99,287 GFF3587 GFF3588 - ABC transporter, permease protein 2 (cluster 1, maltose/g3p/polyamine/iron), at 99,298 to 100,164 GFF3588 GFF3589 - Transcriptional regulator, LysR family, at 100,250 to 101,164 GFF3589 Position (kb) 99 100 101Strain fitness (log2 ratio) -1 0 1 2at 98.389 kb on + strand, within GFF3587at 98.390 kb on - strand, within GFF3587at 98.390 kb on - strand, within GFF3587at 98.623 kb on + strand, within GFF3587at 98.623 kb on + strand, within GFF3587at 98.623 kb on + strand, within GFF3587at 98.623 kb on + strand, within GFF3587at 98.624 kb on - strand, within GFF3587at 98.624 kb on - strand, within GFF3587at 98.751 kb on + strand, within GFF3587at 98.751 kb on + strand, within GFF3587at 98.751 kb on + strand, within GFF3587at 98.752 kb on - strand, within GFF3587at 98.752 kb on - strand, within GFF3587at 98.752 kb on - strand, within GFF3587at 98.995 kb on + strand, within GFF3587at 98.995 kb on + strand, within GFF3587at 98.995 kb on + strand, within GFF3587at 98.995 kb on + strand, within GFF3587at 98.996 kb on - strand, within GFF3587at 98.996 kb on - strand, within GFF3587at 99.037 kb on + strand, within GFF3587at 99.037 kb on + strand, within GFF3587at 99.037 kb on + strand, within GFF3587at 99.038 kb on - strand, within GFF3587at 99.038 kb on - strand, within GFF3587at 99.253 kb on + strandat 99.253 kb on + strandat 99.253 kb on + strandat 99.254 kb on - strandat 99.254 kb on - strandat 99.259 kb on + strandat 99.259 kb on + strandat 99.259 kb on + strandat 99.259 kb on + strandat 99.260 kb on - strandat 99.260 kb on - strandat 99.260 kb on - strandat 99.260 kb on - strandat 99.398 kb on + strand, within GFF3588at 99.398 kb on + strand, within GFF3588at 99.425 kb on + strand, within GFF3588at 99.425 kb on + strand, within GFF3588at 99.426 kb on - strand, within GFF3588at 99.644 kb on + strand, within GFF3588at 99.644 kb on + strand, within GFF3588at 99.644 kb on + strand, within GFF3588at 99.644 kb on + strand, within GFF3588at 99.645 kb on - strand, within GFF3588at 99.731 kb on + strand, within GFF3588at 99.731 kb on + strand, within GFF3588at 99.732 kb on - strand, within GFF3588at 99.732 kb on - strand, within GFF3588at 99.732 kb on - strand, within GFF3588at 99.732 kb on - strand, within GFF3588at 99.732 kb on - strand, within GFF3588at 99.821 kb on + strand, within GFF3588at 99.822 kb on - strand, within GFF3588at 99.830 kb on + strand, within GFF3588at 99.830 kb on + strand, within GFF3588at 99.830 kb on + strand, within GFF3588at 99.831 kb on - strand, within GFF3588at 99.938 kb on + strand, within GFF3588at 99.938 kb on + strand, within GFF3588at 99.938 kb on + strand, within GFF3588at 99.938 kb on + strand, within GFF3588at 99.938 kb on + strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 99.939 kb on - strand, within GFF3588at 100.031 kb on + strand, within GFF3588at 100.031 kb on + strand, within GFF3588at 100.031 kb on + strand, within GFF3588at 100.032 kb on - strand, within GFF3588at 100.032 kb on - strand, within GFF3588at 100.032 kb on - strand, within GFF3588at 100.032 kb on - strand, within GFF3588at 100.040 kb on + strand, within GFF3588at 100.040 kb on + strand, within GFF3588at 100.040 kb on + strand, within GFF3588at 100.041 kb on - strand, within GFF3588at 100.041 kb on - strand, within GFF3588at 100.041 kb on - strand, within GFF3588at 100.098 kb on - strandat 100.173 kb on - strandat 100.454 kb on + strand, within GFF3589at 100.454 kb on + strand, within GFF3589at 100.454 kb on + strand, within GFF3589at 100.455 kb on - strand, within GFF3589at 100.691 kb on + strand, within GFF3589at 100.727 kb on + strand, within GFF3589at 100.727 kb on + strand, within GFF3589at 100.727 kb on + strand, within GFF3589at 100.727 kb on + strand, within GFF3589at 100.728 kb on - strand, within GFF3589at 100.728 kb on - strand, within GFF3589at 100.728 kb on - strand, within GFF3589at 100.922 kb on + strand, within GFF3589at 100.922 kb on + strand, within GFF3589at 100.923 kb on - strand, within GFF3589at 100.923 kb on - strand, within GFF3589at 101.057 kb on + strand, within GFF3589at 101.057 kb on + strand, within GFF3589at 101.057 kb on + strand, within GFF3589at 101.058 kb on - strand, within GFF3589at 101.058 kb on - strand, within GFF3589at 101.058 kb on - strand, within GFF3589at 101.058 kb on - strand, within GFF3589at 101.058 kb on - strand, within GFF3589at 101.058 kb on - strand, within GFF3589at 101.058 kb on - strand, within GFF3589at 101.058 kb on - strand, within GFF3589

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL
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98,389 + GFF3587 0.13 -0.5
98,390 - GFF3587 0.13 -0.4
98,390 - GFF3587 0.13 -0.7
98,623 + GFF3587 0.35 -0.4
98,623 + GFF3587 0.35 -0.5
98,623 + GFF3587 0.35 +1.0
98,623 + GFF3587 0.35 -0.6
98,624 - GFF3587 0.35 -0.4
98,624 - GFF3587 0.35 -0.4
98,751 + GFF3587 0.48 -0.2
98,751 + GFF3587 0.48 +0.1
98,751 + GFF3587 0.48 -0.3
98,752 - GFF3587 0.48 +0.4
98,752 - GFF3587 0.48 -1.7
98,752 - GFF3587 0.48 -0.5
98,995 + GFF3587 0.72 +2.0
98,995 + GFF3587 0.72 -1.6
98,995 + GFF3587 0.72 +0.8
98,995 + GFF3587 0.72 -0.5
98,996 - GFF3587 0.72 -0.7
98,996 - GFF3587 0.72 -0.1
99,037 + GFF3587 0.76 -1.2
99,037 + GFF3587 0.76 -0.5
99,037 + GFF3587 0.76 -0.1
99,038 - GFF3587 0.76 -0.2
99,038 - GFF3587 0.76 +0.4
99,253 + -0.4
99,253 + +0.4
99,253 + -0.4
99,254 - +0.4
99,254 - -0.8
99,259 + +0.6
99,259 + -0.9
99,259 + -0.1
99,259 + -0.9
99,260 - -0.9
99,260 - +1.6
99,260 - +1.6
99,260 - -0.2
99,398 + GFF3588 0.12 -1.1
99,398 + GFF3588 0.12 -0.2
99,425 + GFF3588 0.15 -0.7
99,425 + GFF3588 0.15 -0.4
99,426 - GFF3588 0.15 -0.6
99,644 + GFF3588 0.40 +0.8
99,644 + GFF3588 0.40 -0.5
99,644 + GFF3588 0.40 +0.2
99,644 + GFF3588 0.40 +1.2
99,645 - GFF3588 0.40 +0.3
99,731 + GFF3588 0.50 +0.3
99,731 + GFF3588 0.50 +0.2
99,732 - GFF3588 0.50 -0.0
99,732 - GFF3588 0.50 +0.2
99,732 - GFF3588 0.50 +0.5
99,732 - GFF3588 0.50 -0.1
99,732 - GFF3588 0.50 -0.1
99,821 + GFF3588 0.60 -0.4
99,822 - GFF3588 0.60 -1.2
99,830 + GFF3588 0.61 -0.1
99,830 + GFF3588 0.61 +0.7
99,830 + GFF3588 0.61 -0.8
99,831 - GFF3588 0.61 -1.7
99,938 + GFF3588 0.74 +0.1
99,938 + GFF3588 0.74 -0.3
99,938 + GFF3588 0.74 +0.1
99,938 + GFF3588 0.74 +0.0
99,938 + GFF3588 0.74 +2.6
99,939 - GFF3588 0.74 -0.2
99,939 - GFF3588 0.74 +1.2
99,939 - GFF3588 0.74 -0.3
99,939 - GFF3588 0.74 +0.2
99,939 - GFF3588 0.74 +1.3
99,939 - GFF3588 0.74 -0.2
99,939 - GFF3588 0.74 +2.0
99,939 - GFF3588 0.74 -0.6
99,939 - GFF3588 0.74 +0.2
99,939 - GFF3588 0.74 +0.3
99,939 - GFF3588 0.74 -0.0
99,939 - GFF3588 0.74 -0.6
99,939 - GFF3588 0.74 -0.0
99,939 - GFF3588 0.74 +1.1
100,031 + GFF3588 0.85 +2.0
100,031 + GFF3588 0.85 -0.7
100,031 + GFF3588 0.85 -0.4
100,032 - GFF3588 0.85 +0.2
100,032 - GFF3588 0.85 +0.2
100,032 - GFF3588 0.85 -0.6
100,032 - GFF3588 0.85 +0.5
100,040 + GFF3588 0.86 +1.2
100,040 + GFF3588 0.86 +1.4
100,040 + GFF3588 0.86 -0.4
100,041 - GFF3588 0.86 +1.0
100,041 - GFF3588 0.86 -0.8
100,041 - GFF3588 0.86 -0.6
100,098 - -0.4
100,173 - -0.2
100,454 + GFF3589 0.22 +0.0
100,454 + GFF3589 0.22 -0.1
100,454 + GFF3589 0.22 +0.1
100,455 - GFF3589 0.22 -1.3
100,691 + GFF3589 0.48 -0.7
100,727 + GFF3589 0.52 -1.1
100,727 + GFF3589 0.52 -1.0
100,727 + GFF3589 0.52 -1.1
100,727 + GFF3589 0.52 -0.0
100,728 - GFF3589 0.52 +0.2
100,728 - GFF3589 0.52 +0.2
100,728 - GFF3589 0.52 -0.9
100,922 + GFF3589 0.73 +0.4
100,922 + GFF3589 0.73 +2.4
100,923 - GFF3589 0.74 +0.1
100,923 - GFF3589 0.74 -1.7
101,057 + GFF3589 0.88 -1.2
101,057 + GFF3589 0.88 -1.0
101,057 + GFF3589 0.88 +0.4
101,058 - GFF3589 0.88 +0.7
101,058 - GFF3589 0.88 +0.1
101,058 - GFF3589 0.88 -0.1
101,058 - GFF3589 0.88 +0.2
101,058 - GFF3589 0.88 +0.4
101,058 - GFF3589 0.88 +0.1
101,058 - GFF3589 0.88 -0.4
101,058 - GFF3589 0.88 -0.4

Or see this region's nucleotide sequence