Strain Fitness in Pseudomonas sp. DMC3 around GFF2

Experiment: D-Glucose and casaminos (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 ntGFF1 and GFF2 are separated by 212 nucleotidesGFF2 and GFF3 are separated by 3 nucleotides GFF1 - Tyrosine--tRNA ligase, at 304 to 1,503 GFF1 GFF2 - hypothetical protein, at 1,716 to 3,140 GFF2 GFF3 - Anhydro-N-acetylmuramic acid kinase, at 3,144 to 4,235 GFF3 Position (kb) 1 2 3 4Strain fitness (log2 ratio) -1 0 1at 1.612 kb on - strandat 1.653 kb on - strandat 1.693 kb on + strandat 1.693 kb on + strandat 1.694 kb on - strandat 1.694 kb on - strandat 1.711 kb on + strandat 1.711 kb on + strandat 1.712 kb on - strandat 1.715 kb on + strandat 1.715 kb on + strandat 1.715 kb on + strandat 1.715 kb on + strandat 1.716 kb on - strandat 1.716 kb on - strandat 1.716 kb on - strandat 1.716 kb on - strandat 1.716 kb on - strandat 1.716 kb on - strandat 1.813 kb on + strandat 1.813 kb on + strandat 2.012 kb on - strand, within GFF2at 2.073 kb on - strand, within GFF2at 2.082 kb on - strand, within GFF2at 2.082 kb on - strand, within GFF2at 2.129 kb on - strand, within GFF2at 2.129 kb on - strand, within GFF2at 2.325 kb on + strand, within GFF2at 2.325 kb on + strand, within GFF2at 2.326 kb on - strand, within GFF2at 2.326 kb on - strand, within GFF2at 2.326 kb on - strand, within GFF2at 2.345 kb on + strand, within GFF2at 2.345 kb on + strand, within GFF2at 2.345 kb on + strand, within GFF2at 2.345 kb on + strand, within GFF2at 2.346 kb on - strand, within GFF2at 2.346 kb on - strand, within GFF2at 2.346 kb on - strand, within GFF2at 2.346 kb on - strand, within GFF2at 2.346 kb on - strand, within GFF2at 2.346 kb on - strand, within GFF2at 2.475 kb on + strand, within GFF2at 2.475 kb on + strand, within GFF2at 2.475 kb on + strand, within GFF2at 2.476 kb on - strand, within GFF2at 2.476 kb on - strand, within GFF2at 2.556 kb on + strand, within GFF2at 2.556 kb on + strand, within GFF2at 2.556 kb on + strand, within GFF2at 2.557 kb on - strand, within GFF2at 2.557 kb on - strand, within GFF2at 2.598 kb on + strand, within GFF2at 2.598 kb on + strand, within GFF2at 2.598 kb on + strand, within GFF2at 2.598 kb on + strand, within GFF2at 2.598 kb on + strand, within GFF2at 2.598 kb on + strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.599 kb on - strand, within GFF2at 2.601 kb on + strand, within GFF2at 2.601 kb on + strand, within GFF2at 2.601 kb on + strand, within GFF2at 2.601 kb on + strand, within GFF2at 2.601 kb on + strand, within GFF2at 2.602 kb on - strand, within GFF2at 2.602 kb on - strand, within GFF2at 2.700 kb on - strand, within GFF2at 2.736 kb on + strand, within GFF2at 2.737 kb on - strand, within GFF2at 2.847 kb on + strand, within GFF2at 2.847 kb on + strand, within GFF2at 2.847 kb on + strand, within GFF2at 2.848 kb on - strand, within GFF2at 2.848 kb on - strand, within GFF2at 2.852 kb on + strand, within GFF2at 2.853 kb on - strand, within GFF2at 2.853 kb on - strand, within GFF2at 2.853 kb on - strand, within GFF2at 2.853 kb on - strand, within GFF2at 2.859 kb on + strand, within GFF2at 2.859 kb on + strand, within GFF2at 2.859 kb on + strand, within GFF2at 2.860 kb on - strand, within GFF2at 2.860 kb on - strand, within GFF2at 2.867 kb on + strand, within GFF2at 2.867 kb on + strand, within GFF2at 2.867 kb on + strand, within GFF2at 2.867 kb on + strand, within GFF2at 2.867 kb on + strand, within GFF2at 2.931 kb on + strand, within GFF2at 2.932 kb on - strand, within GFF2at 2.934 kb on - strand, within GFF2at 2.939 kb on + strand, within GFF2at 2.939 kb on + strand, within GFF2at 2.939 kb on + strand, within GFF2at 2.939 kb on + strand, within GFF2at 2.940 kb on - strand, within GFF2at 2.940 kb on - strand, within GFF2at 2.974 kb on - strand, within GFF2at 2.974 kb on - strand, within GFF2at 2.974 kb on - strand, within GFF2at 2.974 kb on - strand, within GFF2at 3.153 kb on + strandat 3.153 kb on + strandat 3.153 kb on + strandat 3.153 kb on + strandat 3.153 kb on + strandat 3.153 kb on + strandat 3.153 kb on + strandat 3.154 kb on - strandat 3.154 kb on - strandat 3.154 kb on - strandat 3.154 kb on - strandat 3.154 kb on - strandat 3.154 kb on - strandat 3.154 kb on - strandat 3.243 kb on + strandat 3.244 kb on - strandat 3.461 kb on + strand, within GFF3at 3.476 kb on + strand, within GFF3at 3.507 kb on - strand, within GFF3at 3.507 kb on - strand, within GFF3at 3.509 kb on + strand, within GFF3at 3.571 kb on + strand, within GFF3at 3.606 kb on - strand, within GFF3at 3.606 kb on - strand, within GFF3at 3.606 kb on - strand, within GFF3at 3.606 kb on - strand, within GFF3at 3.606 kb on - strand, within GFF3at 3.612 kb on - strand, within GFF3at 3.676 kb on + strand, within GFF3at 3.747 kb on + strand, within GFF3at 3.747 kb on + strand, within GFF3at 3.747 kb on + strand, within GFF3at 3.747 kb on + strand, within GFF3at 3.747 kb on + strand, within GFF3at 3.748 kb on - strand, within GFF3at 3.973 kb on + strand, within GFF3at 4.071 kb on - strand, within GFF3at 4.071 kb on - strand, within GFF3at 4.117 kb on + strand, within GFF3at 4.118 kb on - strand, within GFF3at 4.118 kb on - strand, within GFF3

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Per-strain Table

Position Strand Gene LocusTag Fraction D-Glucose and casaminos (C)
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1,612 - +0.6
1,653 - +0.1
1,693 + +0.0
1,693 + -0.0
1,694 - -0.4
1,694 - -0.3
1,711 + +0.9
1,711 + +0.1
1,712 - +0.4
1,715 + +1.5
1,715 + -0.7
1,715 + +0.1
1,715 + +0.2
1,716 - -0.7
1,716 - -0.5
1,716 - +1.1
1,716 - -0.9
1,716 - +0.5
1,716 - -0.9
1,813 + +0.0
1,813 + +0.2
2,012 - GFF2 0.21 -0.2
2,073 - GFF2 0.25 +0.2
2,082 - GFF2 0.26 -0.4
2,082 - GFF2 0.26 -0.3
2,129 - GFF2 0.29 +1.3
2,129 - GFF2 0.29 +0.6
2,325 + GFF2 0.43 +0.0
2,325 + GFF2 0.43 -0.3
2,326 - GFF2 0.43 -0.8
2,326 - GFF2 0.43 +0.2
2,326 - GFF2 0.43 -0.3
2,345 + GFF2 0.44 -0.2
2,345 + GFF2 0.44 +0.1
2,345 + GFF2 0.44 -0.6
2,345 + GFF2 0.44 -0.1
2,346 - GFF2 0.44 +0.3
2,346 - GFF2 0.44 -0.5
2,346 - GFF2 0.44 -0.4
2,346 - GFF2 0.44 +1.4
2,346 - GFF2 0.44 -1.1
2,346 - GFF2 0.44 -0.6
2,475 + GFF2 0.53 -0.2
2,475 + GFF2 0.53 -0.5
2,475 + GFF2 0.53 +0.2
2,476 - GFF2 0.53 +0.1
2,476 - GFF2 0.53 +0.7
2,556 + GFF2 0.59 -0.2
2,556 + GFF2 0.59 +0.2
2,556 + GFF2 0.59 -0.6
2,557 - GFF2 0.59 -0.2
2,557 - GFF2 0.59 +0.0
2,598 + GFF2 0.62 -0.3
2,598 + GFF2 0.62 -1.1
2,598 + GFF2 0.62 +0.6
2,598 + GFF2 0.62 +0.3
2,598 + GFF2 0.62 -0.7
2,598 + GFF2 0.62 +0.4
2,599 - GFF2 0.62 +0.5
2,599 - GFF2 0.62 +0.6
2,599 - GFF2 0.62 +0.5
2,599 - GFF2 0.62 +0.4
2,599 - GFF2 0.62 -0.6
2,599 - GFF2 0.62 +0.5
2,599 - GFF2 0.62 -0.1
2,599 - GFF2 0.62 -0.9
2,599 - GFF2 0.62 +0.4
2,601 + GFF2 0.62 -0.3
2,601 + GFF2 0.62 +0.2
2,601 + GFF2 0.62 +0.0
2,601 + GFF2 0.62 +0.5
2,601 + GFF2 0.62 -0.2
2,602 - GFF2 0.62 -0.3
2,602 - GFF2 0.62 +0.1
2,700 - GFF2 0.69 +0.1
2,736 + GFF2 0.72 +0.9
2,737 - GFF2 0.72 -0.2
2,847 + GFF2 0.79 -0.4
2,847 + GFF2 0.79 +1.0
2,847 + GFF2 0.79 -0.0
2,848 - GFF2 0.79 +1.0
2,848 - GFF2 0.79 +0.3
2,852 + GFF2 0.80 -0.8
2,853 - GFF2 0.80 -0.7
2,853 - GFF2 0.80 +0.7
2,853 - GFF2 0.80 +0.3
2,853 - GFF2 0.80 +0.2
2,859 + GFF2 0.80 +0.3
2,859 + GFF2 0.80 -0.6
2,859 + GFF2 0.80 +0.6
2,860 - GFF2 0.80 -0.1
2,860 - GFF2 0.80 +0.9
2,867 + GFF2 0.81 -0.4
2,867 + GFF2 0.81 -1.5
2,867 + GFF2 0.81 -1.4
2,867 + GFF2 0.81 +0.0
2,867 + GFF2 0.81 +1.2
2,931 + GFF2 0.85 +1.2
2,932 - GFF2 0.85 +0.7
2,934 - GFF2 0.85 -0.8
2,939 + GFF2 0.86 -0.6
2,939 + GFF2 0.86 +0.4
2,939 + GFF2 0.86 +1.0
2,939 + GFF2 0.86 +0.0
2,940 - GFF2 0.86 +0.0
2,940 - GFF2 0.86 +0.2
2,974 - GFF2 0.88 +0.6
2,974 - GFF2 0.88 +0.8
2,974 - GFF2 0.88 +0.3
2,974 - GFF2 0.88 +0.0
3,153 + -0.4
3,153 + +0.0
3,153 + +0.2
3,153 + +0.0
3,153 + +0.8
3,153 + -0.2
3,153 + +0.9
3,154 - -1.6
3,154 - -0.0
3,154 - -0.1
3,154 - +0.4
3,154 - -0.4
3,154 - +0.5
3,154 - -0.7
3,243 + +1.1
3,244 - +0.1
3,461 + GFF3 0.29 +0.9
3,476 + GFF3 0.30 +0.3
3,507 - GFF3 0.33 +0.6
3,507 - GFF3 0.33 -0.6
3,509 + GFF3 0.33 +0.1
3,571 + GFF3 0.39 +0.8
3,606 - GFF3 0.42 +0.0
3,606 - GFF3 0.42 +0.4
3,606 - GFF3 0.42 -0.4
3,606 - GFF3 0.42 -0.6
3,606 - GFF3 0.42 -1.0
3,612 - GFF3 0.43 +0.9
3,676 + GFF3 0.49 +0.2
3,747 + GFF3 0.55 +0.6
3,747 + GFF3 0.55 -0.4
3,747 + GFF3 0.55 +0.8
3,747 + GFF3 0.55 -1.7
3,747 + GFF3 0.55 +0.2
3,748 - GFF3 0.55 -0.3
3,973 + GFF3 0.76 +0.3
4,071 - GFF3 0.85 -1.1
4,071 - GFF3 0.85 -0.7
4,117 + GFF3 0.89 +0.1
4,118 - GFF3 0.89 -0.4
4,118 - GFF3 0.89 +0.1

Or see this region's nucleotide sequence