Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF949

Experiment: Ying_Nucleobase14 rep B; time point 1

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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 ntGFF948 and GFF949 are separated by 41 nucleotidesGFF949 and GFF950 overlap by 1 nucleotidesGFF950 and GFF951 overlap by 1 nucleotides GFF948 - Branched-chain amino acid ABC transporter, amino acid-binding protein (TC 3.A.1.4.1), at 682,479 to 683,681 GFF948 GFF949 - Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1), at 683,723 to 684,769 GFF949 GFF950 - High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1), at 684,769 to 685,641 GFF950 GFF951 - Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3), at 685,641 to 687,509 GFF951 Position (kb) 683 684 685Strain fitness (log2 ratio) -2 -1 0 1 2at 682.763 kb on - strand, within GFF948at 682.763 kb on - strand, within GFF948at 682.768 kb on + strand, within GFF948at 682.806 kb on + strand, within GFF948at 682.806 kb on + strand, within GFF948at 682.806 kb on + strand, within GFF948at 682.806 kb on + strand, within GFF948at 682.806 kb on + strand, within GFF948at 682.828 kb on + strand, within GFF948at 682.829 kb on - strand, within GFF948at 682.829 kb on - strand, within GFF948at 682.840 kb on + strand, within GFF948at 682.841 kb on - strand, within GFF948at 683.050 kb on + strand, within GFF948at 683.050 kb on + strand, within GFF948at 683.050 kb on + strand, within GFF948at 683.050 kb on + strand, within GFF948at 683.101 kb on + strand, within GFF948at 683.231 kb on + strand, within GFF948at 683.283 kb on - strand, within GFF948at 683.426 kb on - strand, within GFF948at 683.670 kb on + strandat 683.670 kb on + strandat 683.671 kb on - strandat 683.693 kb on + strandat 683.693 kb on + strandat 683.693 kb on + strandat 683.694 kb on - strandat 683.694 kb on - strandat 683.701 kb on - strandat 683.751 kb on + strandat 683.752 kb on - strandat 683.826 kb on + strandat 684.005 kb on + strand, within GFF949at 684.046 kb on - strand, within GFF949at 684.046 kb on - strand, within GFF949at 684.049 kb on - strand, within GFF949at 684.049 kb on - strand, within GFF949at 684.111 kb on + strand, within GFF949at 684.112 kb on - strand, within GFF949at 684.246 kb on + strand, within GFF949at 684.246 kb on + strand, within GFF949at 684.247 kb on - strand, within GFF949at 684.247 kb on - strand, within GFF949at 684.249 kb on + strand, within GFF949at 684.250 kb on - strand, within GFF949at 684.250 kb on - strand, within GFF949at 684.250 kb on - strand, within GFF949at 684.253 kb on - strand, within GFF949at 684.393 kb on + strand, within GFF949at 684.420 kb on - strand, within GFF949at 684.519 kb on + strand, within GFF949at 684.639 kb on + strand, within GFF949at 684.640 kb on - strand, within GFF949at 684.640 kb on - strand, within GFF949at 684.641 kb on + strand, within GFF949at 684.642 kb on + strand, within GFF949at 684.642 kb on + strand, within GFF949at 684.806 kb on + strandat 684.806 kb on + strandat 684.806 kb on + strandat 684.806 kb on + strandat 684.819 kb on + strandat 684.875 kb on + strand, within GFF950at 684.875 kb on + strand, within GFF950at 684.876 kb on - strand, within GFF950at 684.876 kb on - strand, within GFF950at 685.011 kb on - strand, within GFF950at 685.189 kb on + strand, within GFF950at 685.215 kb on - strand, within GFF950at 685.229 kb on + strand, within GFF950at 685.499 kb on + strand, within GFF950at 685.499 kb on + strand, within GFF950at 685.499 kb on + strand, within GFF950at 685.590 kb on - strandat 685.634 kb on + strandat 685.634 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_Nucleobase14 rep B; time point 1
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682,763 - GFF948 0.24 +0.3
682,763 - GFF948 0.24 +0.3
682,768 + GFF948 0.24 +1.5
682,806 + GFF948 0.27 -0.5
682,806 + GFF948 0.27 +0.1
682,806 + GFF948 0.27 -0.3
682,806 + GFF948 0.27 -1.1
682,806 + GFF948 0.27 -0.8
682,828 + GFF948 0.29 +0.2
682,829 - GFF948 0.29 +0.2
682,829 - GFF948 0.29 -1.1
682,840 + GFF948 0.30 +1.2
682,841 - GFF948 0.30 -0.6
683,050 + GFF948 0.47 +0.4
683,050 + GFF948 0.47 -0.1
683,050 + GFF948 0.47 -0.5
683,050 + GFF948 0.47 +0.1
683,101 + GFF948 0.52 -1.6
683,231 + GFF948 0.63 +0.2
683,283 - GFF948 0.67 -0.9
683,426 - GFF948 0.79 +0.2
683,670 + -0.8
683,670 + +1.4
683,671 - -1.2
683,693 + +0.3
683,693 + +0.5
683,693 + -1.1
683,694 - -0.4
683,694 - -0.8
683,701 - +0.1
683,751 + -0.1
683,752 - -0.1
683,826 + -0.1
684,005 + GFF949 0.27 +0.5
684,046 - GFF949 0.31 -2.1
684,046 - GFF949 0.31 -0.5
684,049 - GFF949 0.31 +0.3
684,049 - GFF949 0.31 -0.2
684,111 + GFF949 0.37 -2.1
684,112 - GFF949 0.37 -0.1
684,246 + GFF949 0.50 +0.0
684,246 + GFF949 0.50 -0.3
684,247 - GFF949 0.50 +0.1
684,247 - GFF949 0.50 +1.3
684,249 + GFF949 0.50 +1.8
684,250 - GFF949 0.50 +1.0
684,250 - GFF949 0.50 +0.8
684,250 - GFF949 0.50 +0.7
684,253 - GFF949 0.51 +0.1
684,393 + GFF949 0.64 -0.4
684,420 - GFF949 0.67 -0.0
684,519 + GFF949 0.76 -1.0
684,639 + GFF949 0.87 -0.8
684,640 - GFF949 0.88 +0.5
684,640 - GFF949 0.88 +0.1
684,641 + GFF949 0.88 -0.0
684,642 + GFF949 0.88 -0.4
684,642 + GFF949 0.88 -0.3
684,806 + -0.2
684,806 + -0.1
684,806 + +1.1
684,806 + +0.3
684,819 + +0.5
684,875 + GFF950 0.12 -0.2
684,875 + GFF950 0.12 -0.4
684,876 - GFF950 0.12 +0.8
684,876 - GFF950 0.12 +0.1
685,011 - GFF950 0.28 -0.1
685,189 + GFF950 0.48 +0.2
685,215 - GFF950 0.51 -0.2
685,229 + GFF950 0.53 -1.0
685,499 + GFF950 0.84 -0.5
685,499 + GFF950 0.84 +0.2
685,499 + GFF950 0.84 -0.1
685,590 - +0.2
685,634 + +0.5
685,634 + -0.2

Or see this region's nucleotide sequence