Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF965

Experiment: Ying_Nucleobase14 rep A; 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 ntGFF963 and GFF964 are separated by 86 nucleotidesGFF964 and GFF965 are separated by 3 nucleotidesGFF965 and GFF966 are separated by 37 nucleotides GFF963 - Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1), at 698,924 to 699,916 GFF963 GFF964 - High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1), at 700,003 to 700,890 GFF964 GFF965 - Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3), at 700,894 to 702,786 GFF965 GFF966 - Methionine ABC transporter ATP-binding protein, at 702,824 to 703,621 GFF966 Position (kb) 700 701 702 703Strain fitness (log2 ratio) -2 -1 0 1 2at 699.960 kb on + strandat 699.961 kb on - strandat 699.992 kb on + strandat 699.992 kb on + strandat 699.992 kb on + strandat 699.992 kb on + strandat 699.993 kb on - strandat 699.993 kb on - strandat 699.993 kb on - strandat 699.993 kb on - strandat 699.993 kb on - strandat 699.993 kb on - strandat 700.069 kb on + strandat 700.069 kb on + strandat 700.121 kb on + strand, within GFF964at 700.341 kb on + strand, within GFF964at 700.341 kb on + strand, within GFF964at 700.342 kb on - strand, within GFF964at 700.364 kb on + strand, within GFF964at 700.364 kb on + strand, within GFF964at 700.364 kb on + strand, within GFF964at 700.364 kb on + strand, within GFF964at 700.365 kb on - strand, within GFF964at 700.365 kb on - strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.463 kb on + strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.464 kb on - strand, within GFF964at 700.568 kb on - strand, within GFF964at 700.569 kb on + strand, within GFF964at 700.569 kb on + strand, within GFF964at 700.569 kb on + strand, within GFF964at 700.569 kb on + strand, within GFF964at 700.569 kb on + strand, within GFF964at 700.570 kb on - strand, within GFF964at 700.570 kb on - strand, within GFF964at 700.570 kb on - strand, within GFF964at 700.570 kb on - strand, within GFF964at 700.570 kb on - strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.742 kb on + strand, within GFF964at 700.743 kb on - strand, within GFF964at 700.743 kb on - strand, within GFF964at 700.743 kb on - strand, within GFF964at 700.743 kb on - strand, within GFF964at 700.743 kb on - strand, within GFF964at 700.743 kb on - strand, within GFF964at 700.743 kb on - strand, within GFF964at 700.743 kb on - strand, within GFF964at 700.799 kb on + strand, within GFF964at 700.799 kb on + strand, within GFF964at 700.799 kb on + strand, within GFF964at 700.799 kb on + strand, within GFF964at 700.800 kb on - strand, within GFF964at 700.800 kb on - strand, within GFF964at 700.800 kb on - strand, within GFF964at 700.832 kb on + strandat 700.832 kb on + strandat 700.832 kb on + strandat 700.832 kb on + strandat 700.832 kb on + strandat 700.833 kb on - strandat 700.833 kb on - strandat 700.833 kb on - strandat 700.890 kb on + strandat 700.896 kb on - strandat 700.949 kb on + strandat 700.949 kb on + strandat 700.949 kb on + strandat 700.949 kb on + strandat 700.949 kb on + strandat 700.950 kb on - strandat 700.991 kb on + strandat 700.991 kb on + strandat 700.991 kb on + strandat 700.992 kb on - strandat 701.015 kb on + strandat 701.015 kb on + strandat 701.016 kb on - strandat 701.016 kb on - strandat 701.016 kb on - strandat 701.092 kb on + strand, within GFF965at 701.092 kb on + strand, within GFF965at 701.092 kb on + strand, within GFF965at 701.092 kb on + strand, within GFF965at 701.092 kb on + strand, within GFF965at 701.092 kb on + strand, within GFF965at 701.093 kb on - strand, within GFF965at 701.093 kb on - strand, within GFF965at 701.201 kb on + strand, within GFF965at 701.201 kb on + strand, within GFF965at 701.201 kb on + strand, within GFF965at 701.201 kb on + strand, within GFF965at 701.202 kb on - strand, within GFF965at 701.202 kb on - strand, within GFF965at 701.210 kb on + strand, within GFF965at 701.210 kb on + strand, within GFF965at 701.210 kb on + strand, within GFF965at 701.210 kb on + strand, within GFF965at 701.211 kb on - strand, within GFF965at 701.211 kb on - strand, within GFF965at 701.225 kb on - strand, within GFF965at 701.225 kb on - strand, within GFF965at 701.318 kb on + strand, within GFF965at 701.318 kb on + strand, within GFF965at 701.318 kb on + strand, within GFF965at 701.318 kb on + strand, within GFF965at 701.318 kb on + strand, within GFF965at 701.318 kb on + strand, within GFF965at 701.319 kb on - strand, within GFF965at 701.319 kb on - strand, within GFF965at 701.319 kb on - strand, within GFF965at 701.319 kb on - strand, within GFF965at 701.348 kb on + strand, within GFF965at 701.348 kb on + strand, within GFF965at 701.348 kb on + strand, within GFF965at 701.348 kb on + strand, within GFF965at 701.349 kb on - strand, within GFF965at 701.349 kb on - strand, within GFF965at 701.349 kb on - strand, within GFF965at 701.360 kb on + strand, within GFF965at 701.361 kb on - strand, within GFF965at 701.361 kb on - strand, within GFF965at 701.379 kb on + strand, within GFF965at 701.379 kb on + strand, within GFF965at 701.379 kb on + strand, within GFF965at 701.380 kb on - strand, within GFF965at 701.380 kb on - strand, within GFF965at 701.380 kb on - strand, within GFF965at 701.381 kb on + strand, within GFF965at 701.381 kb on + strand, within GFF965at 701.381 kb on + strand, within GFF965at 701.381 kb on + strand, within GFF965at 701.381 kb on + strand, within GFF965at 701.381 kb on + strand, within GFF965at 701.381 kb on + strand, within GFF965at 701.382 kb on - strand, within GFF965at 701.382 kb on - strand, within GFF965at 701.382 kb on - strand, within GFF965at 701.382 kb on - strand, within GFF965at 701.433 kb on + strand, within GFF965at 701.433 kb on + strand, within GFF965at 701.433 kb on + strand, within GFF965at 701.434 kb on - strand, within GFF965at 701.434 kb on - strand, within GFF965at 701.434 kb on - strand, within GFF965at 701.435 kb on + strand, within GFF965at 701.435 kb on + strand, within GFF965at 701.435 kb on + strand, within GFF965at 701.436 kb on - strand, within GFF965at 701.453 kb on + strand, within GFF965at 701.453 kb on + strand, within GFF965at 701.454 kb on - strand, within GFF965at 701.454 kb on - strand, within GFF965at 701.501 kb on + strand, within GFF965at 701.501 kb on + strand, within GFF965at 701.502 kb on - strand, within GFF965at 701.502 kb on - strand, within GFF965at 701.502 kb on - strand, within GFF965at 701.502 kb on - strand, within GFF965at 701.602 kb on + strand, within GFF965at 701.602 kb on + strand, within GFF965at 701.603 kb on - strand, within GFF965at 701.603 kb on - strand, within GFF965at 701.603 kb on - strand, within GFF965at 701.654 kb on + strand, within GFF965at 701.687 kb on + strand, within GFF965at 701.885 kb on + strand, within GFF965at 701.885 kb on + strand, within GFF965at 701.972 kb on + strand, within GFF965at 702.104 kb on + strand, within GFF965at 702.187 kb on + strand, within GFF965at 702.187 kb on + strand, within GFF965at 702.188 kb on - strand, within GFF965at 702.188 kb on - strand, within GFF965at 702.188 kb on - strand, within GFF965at 702.353 kb on + strand, within GFF965at 702.354 kb on - strand, within GFF965at 702.380 kb on + strand, within GFF965at 702.380 kb on + strand, within GFF965at 702.513 kb on + strand, within GFF965at 702.518 kb on + strand, within GFF965at 702.518 kb on + strand, within GFF965at 702.518 kb on + strand, within GFF965at 702.533 kb on + strand, within GFF965at 702.569 kb on + strand, within GFF965at 702.569 kb on + strand, within GFF965at 702.569 kb on + strand, within GFF965at 702.570 kb on - strand, within GFF965at 702.570 kb on - strand, within GFF965at 702.570 kb on - strand, within GFF965at 702.570 kb on - strand, within GFF965at 702.570 kb on - strand, within GFF965at 702.618 kb on + strandat 702.619 kb on - strandat 702.619 kb on - strandat 702.633 kb on - strandat 702.695 kb on - strandat 702.695 kb on - strandat 702.736 kb on + strandat 702.736 kb on + strandat 702.737 kb on - strandat 702.852 kb on + strandat 702.918 kb on + strand, within GFF966at 702.918 kb on + strand, within GFF966at 702.918 kb on + strand, within GFF966at 702.918 kb on + strand, within GFF966at 702.918 kb on + strand, within GFF966at 702.919 kb on - strand, within GFF966at 702.946 kb on + strand, within GFF966at 702.949 kb on - strand, within GFF966at 703.019 kb on - strand, within GFF966at 703.019 kb on - strand, within GFF966at 703.032 kb on + strand, within GFF966at 703.032 kb on + strand, within GFF966at 703.032 kb on + strand, within GFF966at 703.032 kb on + strand, within GFF966at 703.033 kb on - strand, within GFF966at 703.033 kb on - strand, within GFF966at 703.033 kb on - strand, within GFF966at 703.033 kb on - strand, within GFF966at 703.033 kb on - strand, within GFF966at 703.249 kb on - strand, within GFF966at 703.249 kb on - strand, within GFF966at 703.249 kb on - strand, within GFF966at 703.249 kb on - strand, within GFF966at 703.418 kb on + strand, within GFF966at 703.418 kb on + strand, within GFF966at 703.419 kb on - strand, within GFF966at 703.419 kb on - strand, within GFF966at 703.419 kb on - strand, within GFF966at 703.427 kb on + strand, within GFF966at 703.427 kb on + strand, within GFF966at 703.428 kb on - strand, within GFF966at 703.428 kb on - strand, within GFF966at 703.537 kb on - strand, within GFF966at 703.646 kb on - strandat 703.658 kb on + strandat 703.674 kb on + strandat 703.675 kb on - strandat 703.675 kb on - strandat 703.681 kb on + strandat 703.681 kb on + strandat 703.681 kb on + strandat 703.681 kb on + strandat 703.681 kb on + strandat 703.682 kb on - strandat 703.682 kb on - strandat 703.682 kb on - strandat 703.682 kb on - strandat 703.682 kb on - strandat 703.738 kb on + strandat 703.739 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_Nucleobase14 rep A; time point 1
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699,960 + +0.6
699,961 - +0.1
699,992 + +0.7
699,992 + -0.2
699,992 + -2.3
699,992 + -0.4
699,993 - -0.5
699,993 - -2.0
699,993 - -0.3
699,993 - +0.0
699,993 - +0.6
699,993 - +0.1
700,069 + +0.5
700,069 + +0.0
700,121 + GFF964 0.13 -0.2
700,341 + GFF964 0.38 +0.0
700,341 + GFF964 0.38 +0.0
700,342 - GFF964 0.38 +0.8
700,364 + GFF964 0.41 -1.0
700,364 + GFF964 0.41 -1.6
700,364 + GFF964 0.41 -0.6
700,364 + GFF964 0.41 +0.5
700,365 - GFF964 0.41 +0.1
700,365 - GFF964 0.41 -0.5
700,463 + GFF964 0.52 +0.1
700,463 + GFF964 0.52 -0.6
700,463 + GFF964 0.52 +0.1
700,463 + GFF964 0.52 +0.1
700,463 + GFF964 0.52 -0.1
700,463 + GFF964 0.52 -0.3
700,463 + GFF964 0.52 -0.4
700,463 + GFF964 0.52 -0.2
700,463 + GFF964 0.52 -0.1
700,463 + GFF964 0.52 -0.2
700,463 + GFF964 0.52 +0.1
700,463 + GFF964 0.52 +0.2
700,463 + GFF964 0.52 +0.3
700,463 + GFF964 0.52 +1.0
700,464 - GFF964 0.52 -0.0
700,464 - GFF964 0.52 +1.8
700,464 - GFF964 0.52 +0.7
700,464 - GFF964 0.52 +0.4
700,464 - GFF964 0.52 +0.3
700,464 - GFF964 0.52 -0.2
700,464 - GFF964 0.52 +0.3
700,464 - GFF964 0.52 -0.1
700,464 - GFF964 0.52 +0.0
700,464 - GFF964 0.52 -1.2
700,568 - GFF964 0.64 +0.5
700,569 + GFF964 0.64 -0.0
700,569 + GFF964 0.64 +0.3
700,569 + GFF964 0.64 +1.2
700,569 + GFF964 0.64 +0.6
700,569 + GFF964 0.64 -0.4
700,570 - GFF964 0.64 +0.4
700,570 - GFF964 0.64 -0.5
700,570 - GFF964 0.64 -0.4
700,570 - GFF964 0.64 -0.1
700,570 - GFF964 0.64 +0.0
700,742 + GFF964 0.83 -0.1
700,742 + GFF964 0.83 +0.3
700,742 + GFF964 0.83 +1.0
700,742 + GFF964 0.83 +0.8
700,742 + GFF964 0.83 -0.1
700,742 + GFF964 0.83 -0.9
700,742 + GFF964 0.83 +0.1
700,742 + GFF964 0.83 +0.3
700,742 + GFF964 0.83 -0.2
700,742 + GFF964 0.83 -0.7
700,742 + GFF964 0.83 -0.0
700,743 - GFF964 0.83 -0.0
700,743 - GFF964 0.83 +1.0
700,743 - GFF964 0.83 -0.1
700,743 - GFF964 0.83 +0.9
700,743 - GFF964 0.83 -0.3
700,743 - GFF964 0.83 +1.1
700,743 - GFF964 0.83 -0.7
700,743 - GFF964 0.83 -1.0
700,799 + GFF964 0.90 -0.8
700,799 + GFF964 0.90 -1.0
700,799 + GFF964 0.90 +0.2
700,799 + GFF964 0.90 -0.9
700,800 - GFF964 0.90 +0.5
700,800 - GFF964 0.90 -0.2
700,800 - GFF964 0.90 +1.1
700,832 + -0.5
700,832 + -0.8
700,832 + +0.0
700,832 + -1.1
700,832 + +0.1
700,833 - +0.1
700,833 - -1.2
700,833 - -0.3
700,890 + -0.1
700,896 - -0.4
700,949 + -0.7
700,949 + +0.2
700,949 + +0.9
700,949 + -1.0
700,949 + +0.2
700,950 - -0.1
700,991 + +0.0
700,991 + -0.6
700,991 + -0.0
700,992 - -0.3
701,015 + +0.1
701,015 + -0.8
701,016 - -0.3
701,016 - -0.2
701,016 - +0.1
701,092 + GFF965 0.10 +0.4
701,092 + GFF965 0.10 +0.6
701,092 + GFF965 0.10 -0.2
701,092 + GFF965 0.10 -0.2
701,092 + GFF965 0.10 -0.2
701,092 + GFF965 0.10 +0.5
701,093 - GFF965 0.11 -0.9
701,093 - GFF965 0.11 -0.5
701,201 + GFF965 0.16 +0.8
701,201 + GFF965 0.16 +0.2
701,201 + GFF965 0.16 -0.0
701,201 + GFF965 0.16 -1.0
701,202 - GFF965 0.16 -0.6
701,202 - GFF965 0.16 -1.0
701,210 + GFF965 0.17 -0.1
701,210 + GFF965 0.17 -1.0
701,210 + GFF965 0.17 +0.4
701,210 + GFF965 0.17 -0.2
701,211 - GFF965 0.17 -0.4
701,211 - GFF965 0.17 +0.0
701,225 - GFF965 0.17 -0.1
701,225 - GFF965 0.17 +0.1
701,318 + GFF965 0.22 -0.3
701,318 + GFF965 0.22 -0.2
701,318 + GFF965 0.22 +0.6
701,318 + GFF965 0.22 -0.3
701,318 + GFF965 0.22 -1.0
701,318 + GFF965 0.22 -0.1
701,319 - GFF965 0.22 -0.3
701,319 - GFF965 0.22 -0.0
701,319 - GFF965 0.22 -0.0
701,319 - GFF965 0.22 +0.0
701,348 + GFF965 0.24 -0.2
701,348 + GFF965 0.24 -0.0
701,348 + GFF965 0.24 +0.6
701,348 + GFF965 0.24 -0.4
701,349 - GFF965 0.24 +0.8
701,349 - GFF965 0.24 -0.2
701,349 - GFF965 0.24 -0.2
701,360 + GFF965 0.25 +0.1
701,361 - GFF965 0.25 -0.2
701,361 - GFF965 0.25 -0.4
701,379 + GFF965 0.26 -0.9
701,379 + GFF965 0.26 -0.1
701,379 + GFF965 0.26 +0.3
701,380 - GFF965 0.26 +0.4
701,380 - GFF965 0.26 +1.1
701,380 - GFF965 0.26 +0.8
701,381 + GFF965 0.26 +0.7
701,381 + GFF965 0.26 +0.7
701,381 + GFF965 0.26 -0.6
701,381 + GFF965 0.26 -0.6
701,381 + GFF965 0.26 +1.6
701,381 + GFF965 0.26 +0.9
701,381 + GFF965 0.26 -0.7
701,382 - GFF965 0.26 +0.2
701,382 - GFF965 0.26 -0.1
701,382 - GFF965 0.26 +0.2
701,382 - GFF965 0.26 +0.2
701,433 + GFF965 0.28 +1.0
701,433 + GFF965 0.28 +0.1
701,433 + GFF965 0.28 -0.3
701,434 - GFF965 0.29 -0.6
701,434 - GFF965 0.29 +0.1
701,434 - GFF965 0.29 -0.4
701,435 + GFF965 0.29 +0.4
701,435 + GFF965 0.29 -0.5
701,435 + GFF965 0.29 +0.6
701,436 - GFF965 0.29 +0.3
701,453 + GFF965 0.30 -0.1
701,453 + GFF965 0.30 -0.2
701,454 - GFF965 0.30 -1.5
701,454 - GFF965 0.30 -0.2
701,501 + GFF965 0.32 -0.8
701,501 + GFF965 0.32 -1.5
701,502 - GFF965 0.32 -1.1
701,502 - GFF965 0.32 +0.2
701,502 - GFF965 0.32 +0.2
701,502 - GFF965 0.32 +0.4
701,602 + GFF965 0.37 -0.3
701,602 + GFF965 0.37 -0.3
701,603 - GFF965 0.37 +0.2
701,603 - GFF965 0.37 +0.1
701,603 - GFF965 0.37 +0.1
701,654 + GFF965 0.40 +0.3
701,687 + GFF965 0.42 -0.4
701,885 + GFF965 0.52 -0.6
701,885 + GFF965 0.52 +0.2
701,972 + GFF965 0.57 +0.8
702,104 + GFF965 0.64 -0.3
702,187 + GFF965 0.68 +0.2
702,187 + GFF965 0.68 +0.4
702,188 - GFF965 0.68 +0.6
702,188 - GFF965 0.68 -0.8
702,188 - GFF965 0.68 -0.4
702,353 + GFF965 0.77 -0.6
702,354 - GFF965 0.77 +1.2
702,380 + GFF965 0.78 -0.0
702,380 + GFF965 0.78 -1.8
702,513 + GFF965 0.86 -0.5
702,518 + GFF965 0.86 -0.1
702,518 + GFF965 0.86 -0.2
702,518 + GFF965 0.86 +0.0
702,533 + GFF965 0.87 +0.1
702,569 + GFF965 0.88 -1.2
702,569 + GFF965 0.88 -0.6
702,569 + GFF965 0.88 -0.8
702,570 - GFF965 0.89 +0.1
702,570 - GFF965 0.89 -0.1
702,570 - GFF965 0.89 +0.0
702,570 - GFF965 0.89 -0.1
702,570 - GFF965 0.89 +0.4
702,618 + -0.8
702,619 - -0.5
702,619 - -0.1
702,633 - +0.1
702,695 - +0.1
702,695 - -1.1
702,736 + -0.4
702,736 + +0.1
702,737 - +0.3
702,852 + -0.2
702,918 + GFF966 0.12 -1.5
702,918 + GFF966 0.12 +0.2
702,918 + GFF966 0.12 +0.1
702,918 + GFF966 0.12 -0.1
702,918 + GFF966 0.12 +0.2
702,919 - GFF966 0.12 +0.4
702,946 + GFF966 0.15 -1.6
702,949 - GFF966 0.16 +2.0
703,019 - GFF966 0.24 +1.4
703,019 - GFF966 0.24 +0.2
703,032 + GFF966 0.26 +0.4
703,032 + GFF966 0.26 +0.3
703,032 + GFF966 0.26 +1.3
703,032 + GFF966 0.26 +1.2
703,033 - GFF966 0.26 +0.4
703,033 - GFF966 0.26 -0.2
703,033 - GFF966 0.26 +0.3
703,033 - GFF966 0.26 -0.0
703,033 - GFF966 0.26 +0.6
703,249 - GFF966 0.53 -0.4
703,249 - GFF966 0.53 +0.1
703,249 - GFF966 0.53 +0.6
703,249 - GFF966 0.53 -0.8
703,418 + GFF966 0.74 -0.0
703,418 + GFF966 0.74 +0.3
703,419 - GFF966 0.75 -0.3
703,419 - GFF966 0.75 -0.2
703,419 - GFF966 0.75 +0.2
703,427 + GFF966 0.76 +0.1
703,427 + GFF966 0.76 -1.2
703,428 - GFF966 0.76 -1.1
703,428 - GFF966 0.76 +0.3
703,537 - GFF966 0.89 +0.1
703,646 - -0.2
703,658 + -0.4
703,674 + -0.5
703,675 - +0.5
703,675 - +0.1
703,681 + -0.7
703,681 + -0.6
703,681 + +0.0
703,681 + -0.5
703,681 + +0.6
703,682 - +1.3
703,682 - -1.1
703,682 - -0.1
703,682 - +0.0
703,682 - -0.1
703,738 + +1.0
703,739 - -0.5

Or see this region's nucleotide sequence