Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF5

Experiment: Ying_sugar7 rep C; time point 3

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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 ntGFF3 and GFF4 are separated by 602 nucleotidesGFF4 and GFF5 are separated by 7 nucleotidesGFF5 and GFF6 are separated by 180 nucleotides GFF3 - hypothetical protein, at 1,314 to 1,637 GFF3 GFF4 - hypothetical protein, at 2,240 to 2,356 GFF4 GFF5 - Transcriptional regulator, LysR family, at 2,364 to 3,236 GFF5 GFF6 - Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation), at 3,417 to 4,706 GFF6 Position (kb) 2 3 4Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1.390 kb on + strand, within GFF3at 1.390 kb on + strand, within GFF3at 1.391 kb on - strand, within GFF3at 1.407 kb on + strand, within GFF3at 1.407 kb on + strand, within GFF3at 1.407 kb on + strand, within GFF3at 1.408 kb on - strand, within GFF3at 1.408 kb on - strand, within GFF3at 1.408 kb on - strand, within GFF3at 1.408 kb on - strand, within GFF3at 1.408 kb on - strand, within GFF3at 1.476 kb on + strand, within GFF3at 1.476 kb on + strand, within GFF3at 1.509 kb on + strand, within GFF3at 1.509 kb on + strand, within GFF3at 1.509 kb on + strand, within GFF3at 1.509 kb on + strand, within GFF3at 1.510 kb on - strand, within GFF3at 1.510 kb on - strand, within GFF3at 1.510 kb on - strand, within GFF3at 1.510 kb on - strand, within GFF3at 1.510 kb on - strand, within GFF3at 1.510 kb on - strand, within GFF3at 1.510 kb on - strand, within GFF3at 1.560 kb on + strand, within GFF3at 1.561 kb on - strand, within GFF3at 1.561 kb on - strand, within GFF3at 1.561 kb on - strand, within GFF3at 1.786 kb on + strandat 1.787 kb on - strandat 1.871 kb on - strandat 2.067 kb on + strandat 2.105 kb on - strandat 2.149 kb on - strandat 2.309 kb on + strand, within GFF4at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.458 kb on + strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.459 kb on - strand, within GFF5at 2.599 kb on + strand, within GFF5at 2.599 kb on + strand, within GFF5at 2.599 kb on + strand, within GFF5at 2.599 kb on + strand, within GFF5at 2.599 kb on + strand, within GFF5at 2.599 kb on + strand, within GFF5at 2.599 kb on + strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.600 kb on - strand, within GFF5at 2.650 kb on + strand, within GFF5at 2.650 kb on + strand, within GFF5at 2.651 kb on - strand, within GFF5at 2.651 kb on - strand, within GFF5at 2.964 kb on + strand, within GFF5at 2.965 kb on - strand, within GFF5at 2.982 kb on - strand, within GFF5at 3.266 kb on - strandat 3.628 kb on - strand, within GFF6at 3.909 kb on + strand, within GFF6at 3.909 kb on + strand, within GFF6at 3.909 kb on + strand, within GFF6at 3.909 kb on + strand, within GFF6at 3.909 kb on + strand, within GFF6at 3.910 kb on - strand, within GFF6at 3.910 kb on - strand, within GFF6at 3.910 kb on - strand, within GFF6at 4.020 kb on + strand, within GFF6

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_sugar7 rep C; time point 3
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1,390 + GFF3 0.23 -0.3
1,390 + GFF3 0.23 +0.9
1,391 - GFF3 0.24 +0.2
1,407 + GFF3 0.29 +0.3
1,407 + GFF3 0.29 +0.5
1,407 + GFF3 0.29 -2.9
1,408 - GFF3 0.29 -0.4
1,408 - GFF3 0.29 +0.2
1,408 - GFF3 0.29 +0.1
1,408 - GFF3 0.29 +0.8
1,408 - GFF3 0.29 -0.2
1,476 + GFF3 0.50 -0.2
1,476 + GFF3 0.50 -0.3
1,509 + GFF3 0.60 +0.4
1,509 + GFF3 0.60 +1.6
1,509 + GFF3 0.60 +0.3
1,509 + GFF3 0.60 +0.7
1,510 - GFF3 0.60 +1.3
1,510 - GFF3 0.60 +0.3
1,510 - GFF3 0.60 +0.1
1,510 - GFF3 0.60 +0.6
1,510 - GFF3 0.60 +1.3
1,510 - GFF3 0.60 +0.1
1,510 - GFF3 0.60 +0.1
1,560 + GFF3 0.76 +0.1
1,561 - GFF3 0.76 -0.5
1,561 - GFF3 0.76 +0.1
1,561 - GFF3 0.76 -0.4
1,786 + -0.5
1,787 - +0.1
1,871 - +1.5
2,067 + +0.9
2,105 - -0.5
2,149 - -0.4
2,309 + GFF4 0.59 +1.5
2,458 + GFF5 0.11 +0.3
2,458 + GFF5 0.11 +0.8
2,458 + GFF5 0.11 +0.2
2,458 + GFF5 0.11 +0.8
2,458 + GFF5 0.11 +0.2
2,458 + GFF5 0.11 +0.4
2,458 + GFF5 0.11 -0.4
2,458 + GFF5 0.11 +0.1
2,458 + GFF5 0.11 -0.3
2,458 + GFF5 0.11 -0.1
2,458 + GFF5 0.11 +0.2
2,458 + GFF5 0.11 +0.1
2,459 - GFF5 0.11 +0.1
2,459 - GFF5 0.11 -0.1
2,459 - GFF5 0.11 +0.1
2,459 - GFF5 0.11 +1.2
2,459 - GFF5 0.11 -0.5
2,459 - GFF5 0.11 -0.1
2,459 - GFF5 0.11 -0.4
2,459 - GFF5 0.11 -0.0
2,459 - GFF5 0.11 +0.1
2,459 - GFF5 0.11 +0.3
2,459 - GFF5 0.11 -0.4
2,459 - GFF5 0.11 +0.3
2,459 - GFF5 0.11 -0.2
2,459 - GFF5 0.11 -2.3
2,599 + GFF5 0.27 +0.1
2,599 + GFF5 0.27 -0.5
2,599 + GFF5 0.27 -0.3
2,599 + GFF5 0.27 -0.1
2,599 + GFF5 0.27 +0.1
2,599 + GFF5 0.27 +0.2
2,599 + GFF5 0.27 +0.2
2,600 - GFF5 0.27 +0.4
2,600 - GFF5 0.27 +0.5
2,600 - GFF5 0.27 -0.2
2,600 - GFF5 0.27 +1.0
2,600 - GFF5 0.27 +0.9
2,600 - GFF5 0.27 +0.5
2,600 - GFF5 0.27 -0.9
2,600 - GFF5 0.27 +1.2
2,600 - GFF5 0.27 -0.1
2,600 - GFF5 0.27 +0.0
2,600 - GFF5 0.27 -0.5
2,600 - GFF5 0.27 -0.9
2,650 + GFF5 0.33 +0.1
2,650 + GFF5 0.33 +0.3
2,651 - GFF5 0.33 +0.1
2,651 - GFF5 0.33 +0.1
2,964 + GFF5 0.69 +0.1
2,965 - GFF5 0.69 +0.3
2,982 - GFF5 0.71 -0.3
3,266 - +0.2
3,628 - GFF6 0.16 +0.5
3,909 + GFF6 0.38 +0.1
3,909 + GFF6 0.38 -0.4
3,909 + GFF6 0.38 -0.6
3,909 + GFF6 0.38 -0.8
3,909 + GFF6 0.38 -0.1
3,910 - GFF6 0.38 -0.4
3,910 - GFF6 0.38 -0.3
3,910 - GFF6 0.38 +0.4
4,020 + GFF6 0.47 +2.1

Or see this region's nucleotide sequence