Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF4044

Experiment: Ying_Nucleobase14 rep A; time point 2

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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 ntGFF4043 and GFF4044 are separated by 87 nucleotidesGFF4044 and GFF5791 are separated by 111 nucleotidesGFF5791 and GFF5792 are separated by 77 nucleotidesGFF5792 and GFF4045 are separated by 62 nucleotides GFF4043 - ATP-dependent Clp protease ATP-binding subunit ClpX, at 961,841 to 963,106 GFF4043 GFF4044 - ATP-dependent protease La (EC 3.4.21.53) Type I, at 963,194 to 965,626 GFF4044 GFF5791 - tRNA-Gly-GCC, at 965,738 to 965,810 GFF5791 GFF5792 - tRNA-Cys-GCA, at 965,888 to 965,958 GFF5792 GFF4045 - hypothetical protein, at 966,021 to 966,692 GFF4045 Position (kb) 963 964 965 966Strain fitness (log2 ratio) -1 0 1 2 3 4at 962.307 kb on - strand, within GFF4043at 962.360 kb on + strand, within GFF4043at 962.360 kb on + strand, within GFF4043at 962.360 kb on + strand, within GFF4043at 962.360 kb on + strand, within GFF4043at 962.361 kb on - strand, within GFF4043at 962.361 kb on - strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.393 kb on + strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 962.394 kb on - strand, within GFF4043at 963.080 kb on + strandat 963.080 kb on + strandat 963.081 kb on - strandat 963.171 kb on + strandat 963.171 kb on + strandat 963.172 kb on - strandat 963.172 kb on - strandat 963.635 kb on + strand, within GFF4044at 963.635 kb on + strand, within GFF4044at 963.635 kb on + strand, within GFF4044at 963.635 kb on + strand, within GFF4044at 963.635 kb on + strand, within GFF4044at 963.635 kb on + strand, within GFF4044at 963.636 kb on - strand, within GFF4044at 963.636 kb on - strand, within GFF4044at 963.636 kb on - strand, within GFF4044at 963.636 kb on - strand, within GFF4044at 963.899 kb on + strand, within GFF4044at 963.899 kb on + strand, within GFF4044at 963.899 kb on + strand, within GFF4044at 963.899 kb on + strand, within GFF4044at 963.900 kb on - strand, within GFF4044at 963.900 kb on - strand, within GFF4044at 963.900 kb on - strand, within GFF4044at 963.985 kb on + strand, within GFF4044at 963.985 kb on + strand, within GFF4044at 963.986 kb on - strand, within GFF4044at 963.986 kb on - strand, within GFF4044at 963.986 kb on - strand, within GFF4044at 964.091 kb on + strand, within GFF4044at 964.091 kb on + strand, within GFF4044at 964.091 kb on + strand, within GFF4044at 964.091 kb on + strand, within GFF4044at 964.091 kb on + strand, within GFF4044at 964.091 kb on + strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.092 kb on - strand, within GFF4044at 964.184 kb on + strand, within GFF4044at 964.184 kb on + strand, within GFF4044at 964.185 kb on - strand, within GFF4044at 964.185 kb on - strand, within GFF4044at 964.185 kb on - strand, within GFF4044at 964.220 kb on + strand, within GFF4044at 964.221 kb on - strand, within GFF4044at 964.340 kb on + strand, within GFF4044at 964.340 kb on + strand, within GFF4044at 964.340 kb on + strand, within GFF4044at 964.340 kb on + strand, within GFF4044at 964.340 kb on + strand, within GFF4044at 964.340 kb on + strand, within GFF4044at 964.340 kb on + strand, within GFF4044at 964.341 kb on - strand, within GFF4044at 964.341 kb on - strand, within GFF4044at 964.341 kb on - strand, within GFF4044at 964.341 kb on - strand, within GFF4044at 964.341 kb on - strand, within GFF4044at 964.341 kb on - strand, within GFF4044at 964.341 kb on - strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.403 kb on + strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.404 kb on - strand, within GFF4044at 964.577 kb on + strand, within GFF4044at 964.577 kb on + strand, within GFF4044at 964.577 kb on + strand, within GFF4044at 964.577 kb on + strand, within GFF4044at 964.577 kb on + strand, within GFF4044at 964.577 kb on + strand, within GFF4044at 964.578 kb on - strand, within GFF4044at 964.578 kb on - strand, within GFF4044at 964.578 kb on - strand, within GFF4044at 964.667 kb on + strand, within GFF4044at 964.725 kb on - strand, within GFF4044at 964.812 kb on - strand, within GFF4044at 964.812 kb on - strand, within GFF4044at 964.814 kb on + strand, within GFF4044at 964.814 kb on + strand, within GFF4044at 964.814 kb on + strand, within GFF4044at 964.814 kb on + strand, within GFF4044at 964.815 kb on - strand, within GFF4044at 964.815 kb on - strand, within GFF4044at 964.815 kb on - strand, within GFF4044at 964.815 kb on - strand, within GFF4044at 964.815 kb on - strand, within GFF4044at 964.815 kb on - strand, within GFF4044at 964.815 kb on - strand, within GFF4044at 964.901 kb on + strand, within GFF4044at 964.901 kb on + strand, within GFF4044at 964.901 kb on + strand, within GFF4044at 964.901 kb on + strand, within GFF4044at 964.902 kb on - strand, within GFF4044at 964.902 kb on - strand, within GFF4044at 964.902 kb on - strand, within GFF4044at 964.961 kb on + strand, within GFF4044at 964.961 kb on + strand, within GFF4044at 964.961 kb on + strand, within GFF4044at 964.961 kb on + strand, within GFF4044at 964.961 kb on + strand, within GFF4044at 964.961 kb on + strand, within GFF4044at 964.961 kb on + strand, within GFF4044at 964.961 kb on + strand, within GFF4044at 964.962 kb on - strand, within GFF4044at 964.962 kb on - strand, within GFF4044at 964.967 kb on + strand, within GFF4044at 964.967 kb on + strand, within GFF4044at 964.967 kb on + strand, within GFF4044at 964.968 kb on - strand, within GFF4044at 964.968 kb on - strand, within GFF4044at 964.968 kb on - strand, within GFF4044at 964.968 kb on - strand, within GFF4044at 964.968 kb on - strand, within GFF4044at 964.968 kb on - strand, within GFF4044at 964.968 kb on - strand, within GFF4044at 965.373 kb on - strand, within GFF4044at 965.708 kb on + strandat 966.277 kb on + strand, within GFF4045at 966.277 kb on + strand, within GFF4045at 966.277 kb on + strand, within GFF4045at 966.277 kb on + strand, within GFF4045at 966.278 kb on - strand, within GFF4045at 966.278 kb on - strand, within GFF4045at 966.278 kb on - strand, within GFF4045at 966.382 kb on + strand, within GFF4045at 966.382 kb on + strand, within GFF4045at 966.382 kb on + strand, within GFF4045at 966.382 kb on + strand, within GFF4045at 966.383 kb on - strand, within GFF4045at 966.383 kb on - strand, within GFF4045at 966.383 kb on - strand, within GFF4045at 966.383 kb on - strand, within GFF4045at 966.520 kb on + strand, within GFF4045at 966.520 kb on + strand, within GFF4045at 966.520 kb on + strand, within GFF4045at 966.568 kb on + strand, within GFF4045

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_Nucleobase14 rep A; time point 2
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962,307 - GFF4043 0.37 +0.4
962,360 + GFF4043 0.41 +0.4
962,360 + GFF4043 0.41 +1.2
962,360 + GFF4043 0.41 +1.2
962,360 + GFF4043 0.41 +1.7
962,361 - GFF4043 0.41 +0.0
962,361 - GFF4043 0.41 -0.4
962,393 + GFF4043 0.44 +1.1
962,393 + GFF4043 0.44 -0.1
962,393 + GFF4043 0.44 +1.1
962,393 + GFF4043 0.44 +1.8
962,393 + GFF4043 0.44 +1.2
962,393 + GFF4043 0.44 +1.4
962,393 + GFF4043 0.44 +1.7
962,393 + GFF4043 0.44 +1.7
962,393 + GFF4043 0.44 +0.9
962,393 + GFF4043 0.44 +1.6
962,394 - GFF4043 0.44 +1.6
962,394 - GFF4043 0.44 +0.2
962,394 - GFF4043 0.44 -0.0
962,394 - GFF4043 0.44 +1.1
962,394 - GFF4043 0.44 +1.0
962,394 - GFF4043 0.44 +0.8
962,394 - GFF4043 0.44 +1.5
962,394 - GFF4043 0.44 +0.7
962,394 - GFF4043 0.44 +0.4
963,080 + +0.9
963,080 + +1.2
963,081 - +1.4
963,171 + +0.5
963,171 + +1.0
963,172 - +2.2
963,172 - +0.8
963,635 + GFF4044 0.18 +1.2
963,635 + GFF4044 0.18 +1.3
963,635 + GFF4044 0.18 +1.2
963,635 + GFF4044 0.18 +0.8
963,635 + GFF4044 0.18 +0.7
963,635 + GFF4044 0.18 +1.6
963,636 - GFF4044 0.18 +1.1
963,636 - GFF4044 0.18 +1.0
963,636 - GFF4044 0.18 +0.5
963,636 - GFF4044 0.18 +4.1
963,899 + GFF4044 0.29 +1.0
963,899 + GFF4044 0.29 +0.7
963,899 + GFF4044 0.29 +1.0
963,899 + GFF4044 0.29 +1.2
963,900 - GFF4044 0.29 +0.4
963,900 - GFF4044 0.29 +1.0
963,900 - GFF4044 0.29 +0.1
963,985 + GFF4044 0.33 +0.4
963,985 + GFF4044 0.33 +0.7
963,986 - GFF4044 0.33 +1.9
963,986 - GFF4044 0.33 +0.5
963,986 - GFF4044 0.33 +1.7
964,091 + GFF4044 0.37 +1.9
964,091 + GFF4044 0.37 +0.9
964,091 + GFF4044 0.37 +1.2
964,091 + GFF4044 0.37 +1.3
964,091 + GFF4044 0.37 +0.9
964,091 + GFF4044 0.37 +1.8
964,092 - GFF4044 0.37 +1.2
964,092 - GFF4044 0.37 +1.3
964,092 - GFF4044 0.37 +1.2
964,092 - GFF4044 0.37 -0.2
964,092 - GFF4044 0.37 +2.5
964,092 - GFF4044 0.37 +1.4
964,092 - GFF4044 0.37 +0.6
964,092 - GFF4044 0.37 +1.5
964,092 - GFF4044 0.37 +0.9
964,184 + GFF4044 0.41 +1.3
964,184 + GFF4044 0.41 +0.8
964,185 - GFF4044 0.41 +1.3
964,185 - GFF4044 0.41 +0.3
964,185 - GFF4044 0.41 +1.4
964,220 + GFF4044 0.42 +0.9
964,221 - GFF4044 0.42 -1.2
964,340 + GFF4044 0.47 +1.0
964,340 + GFF4044 0.47 +0.7
964,340 + GFF4044 0.47 +1.7
964,340 + GFF4044 0.47 +1.5
964,340 + GFF4044 0.47 -0.1
964,340 + GFF4044 0.47 +1.7
964,340 + GFF4044 0.47 +1.5
964,341 - GFF4044 0.47 +2.0
964,341 - GFF4044 0.47 +1.4
964,341 - GFF4044 0.47 -0.1
964,341 - GFF4044 0.47 +1.5
964,341 - GFF4044 0.47 +1.3
964,341 - GFF4044 0.47 +1.2
964,341 - GFF4044 0.47 +1.1
964,403 + GFF4044 0.50 +0.5
964,403 + GFF4044 0.50 +0.2
964,403 + GFF4044 0.50 +1.5
964,403 + GFF4044 0.50 +0.9
964,403 + GFF4044 0.50 +1.1
964,403 + GFF4044 0.50 +1.5
964,403 + GFF4044 0.50 +0.7
964,403 + GFF4044 0.50 +1.4
964,403 + GFF4044 0.50 +0.9
964,404 - GFF4044 0.50 +1.1
964,404 - GFF4044 0.50 +1.0
964,404 - GFF4044 0.50 +3.1
964,404 - GFF4044 0.50 +1.5
964,404 - GFF4044 0.50 +1.3
964,404 - GFF4044 0.50 +0.7
964,404 - GFF4044 0.50 +1.2
964,404 - GFF4044 0.50 +1.0
964,404 - GFF4044 0.50 +1.3
964,404 - GFF4044 0.50 +1.2
964,404 - GFF4044 0.50 +1.1
964,577 + GFF4044 0.57 -0.2
964,577 + GFF4044 0.57 +1.1
964,577 + GFF4044 0.57 -0.5
964,577 + GFF4044 0.57 -0.3
964,577 + GFF4044 0.57 +1.5
964,577 + GFF4044 0.57 +1.1
964,578 - GFF4044 0.57 +0.8
964,578 - GFF4044 0.57 +1.6
964,578 - GFF4044 0.57 +1.0
964,667 + GFF4044 0.61 +1.2
964,725 - GFF4044 0.63 +1.4
964,812 - GFF4044 0.67 +1.5
964,812 - GFF4044 0.67 +1.7
964,814 + GFF4044 0.67 +0.9
964,814 + GFF4044 0.67 -0.1
964,814 + GFF4044 0.67 +1.8
964,814 + GFF4044 0.67 +1.1
964,815 - GFF4044 0.67 +0.2
964,815 - GFF4044 0.67 +1.3
964,815 - GFF4044 0.67 +1.4
964,815 - GFF4044 0.67 +1.8
964,815 - GFF4044 0.67 +0.7
964,815 - GFF4044 0.67 +2.2
964,815 - GFF4044 0.67 +3.1
964,901 + GFF4044 0.70 +0.1
964,901 + GFF4044 0.70 +0.9
964,901 + GFF4044 0.70 +1.8
964,901 + GFF4044 0.70 +1.2
964,902 - GFF4044 0.70 +1.6
964,902 - GFF4044 0.70 +1.1
964,902 - GFF4044 0.70 +0.5
964,961 + GFF4044 0.73 +1.3
964,961 + GFF4044 0.73 +0.0
964,961 + GFF4044 0.73 +1.6
964,961 + GFF4044 0.73 +1.1
964,961 + GFF4044 0.73 +0.6
964,961 + GFF4044 0.73 +1.7
964,961 + GFF4044 0.73 +0.6
964,961 + GFF4044 0.73 +1.3
964,962 - GFF4044 0.73 +0.7
964,962 - GFF4044 0.73 +1.0
964,967 + GFF4044 0.73 +0.6
964,967 + GFF4044 0.73 +1.5
964,967 + GFF4044 0.73 +1.2
964,968 - GFF4044 0.73 +0.8
964,968 - GFF4044 0.73 +1.3
964,968 - GFF4044 0.73 +1.3
964,968 - GFF4044 0.73 +1.5
964,968 - GFF4044 0.73 +1.7
964,968 - GFF4044 0.73 +1.0
964,968 - GFF4044 0.73 +1.2
965,373 - GFF4044 0.90 -0.1
965,708 + +2.7
966,277 + GFF4045 0.38 -0.5
966,277 + GFF4045 0.38 +0.3
966,277 + GFF4045 0.38 +0.4
966,277 + GFF4045 0.38 +1.2
966,278 - GFF4045 0.38 +0.0
966,278 - GFF4045 0.38 -0.1
966,278 - GFF4045 0.38 +0.5
966,382 + GFF4045 0.54 +1.4
966,382 + GFF4045 0.54 -1.0
966,382 + GFF4045 0.54 +1.4
966,382 + GFF4045 0.54 -0.1
966,383 - GFF4045 0.54 -1.2
966,383 - GFF4045 0.54 -1.0
966,383 - GFF4045 0.54 -0.5
966,383 - GFF4045 0.54 +0.8
966,520 + GFF4045 0.74 +0.1
966,520 + GFF4045 0.74 +1.5
966,520 + GFF4045 0.74 -1.2
966,568 + GFF4045 0.81 +1.0

Or see this region's nucleotide sequence