Strain Fitness in Sphingobium sp. HT1-2 around GFF55

Experiment: EMM_noCarbon with Sucrose and Putrescine

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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 ntGFF53 and GFF54 are separated by 6 nucleotidesGFF54 and GFF55 are separated by 87 nucleotidesGFF55 and GFF56 are separated by 115 nucleotides GFF53 - FIG00450481: hypothetical protein, at 43,052 to 43,858 GFF53 GFF54 - Peptidyl-tRNA hydrolase (EC 3.1.1.29), at 43,865 to 44,434 GFF54 GFF55 - LSU ribosomal protein L25p, at 44,522 to 45,133 GFF55 GFF56 - hypothetical protein, at 45,249 to 46,139 GFF56 Position (kb) 44 45 46Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 43.544 kb on - strand, within GFF53at 43.544 kb on - strand, within GFF53at 43.549 kb on + strand, within GFF53at 43.549 kb on + strand, within GFF53at 43.549 kb on + strand, within GFF53at 43.551 kb on + strand, within GFF53at 43.553 kb on + strand, within GFF53at 43.557 kb on - strand, within GFF53at 43.557 kb on - strand, within GFF53at 43.559 kb on - strand, within GFF53at 43.559 kb on - strand, within GFF53at 43.578 kb on + strand, within GFF53at 43.586 kb on - strand, within GFF53at 43.594 kb on - strand, within GFF53at 43.622 kb on - strand, within GFF53at 43.642 kb on - strand, within GFF53at 43.645 kb on + strand, within GFF53at 43.645 kb on + strand, within GFF53at 43.659 kb on + strand, within GFF53at 43.659 kb on + strand, within GFF53at 43.689 kb on + strand, within GFF53at 43.704 kb on + strand, within GFF53at 43.704 kb on + strand, within GFF53at 43.704 kb on + strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.712 kb on - strand, within GFF53at 43.724 kb on + strand, within GFF53at 43.725 kb on + strand, within GFF53at 43.729 kb on + strand, within GFF53at 43.748 kb on + strand, within GFF53at 43.748 kb on + strand, within GFF53at 43.748 kb on + strand, within GFF53at 43.748 kb on + strand, within GFF53at 43.756 kb on - strand, within GFF53at 43.756 kb on - strand, within GFF53at 43.756 kb on - strand, within GFF53at 43.756 kb on - strand, within GFF53at 43.756 kb on - strand, within GFF53at 43.758 kb on + strand, within GFF53at 43.852 kb on + strandat 43.852 kb on + strandat 43.852 kb on + strandat 43.852 kb on + strandat 43.852 kb on + strandat 43.852 kb on + strandat 43.852 kb on + strandat 43.860 kb on - strandat 43.860 kb on - strandat 43.860 kb on - strandat 43.860 kb on - strandat 43.860 kb on - strandat 43.872 kb on + strandat 43.874 kb on - strandat 43.882 kb on + strandat 44.421 kb on + strandat 44.421 kb on + strandat 44.421 kb on + strandat 44.421 kb on + strandat 44.429 kb on - strandat 44.429 kb on - strandat 44.429 kb on - strandat 44.429 kb on - strandat 44.429 kb on - strandat 44.429 kb on - strandat 44.429 kb on - strandat 44.518 kb on - strandat 44.521 kb on - strandat 44.537 kb on - strandat 44.654 kb on - strand, within GFF55at 44.687 kb on - strand, within GFF55at 44.688 kb on - strand, within GFF55at 44.739 kb on - strand, within GFF55at 44.778 kb on - strand, within GFF55at 44.869 kb on - strand, within GFF55at 45.241 kb on + strandat 45.243 kb on - strandat 45.246 kb on + strandat 45.254 kb on - strandat 45.259 kb on + strandat 45.267 kb on + strandat 45.267 kb on - strandat 45.267 kb on - strandat 45.267 kb on - strandat 45.268 kb on + strandat 45.275 kb on - strandat 45.275 kb on - strandat 45.276 kb on - strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.280 kb on + strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.288 kb on - strandat 45.293 kb on - strandat 45.325 kb on - strandat 45.349 kb on + strand, within GFF56at 45.349 kb on + strand, within GFF56at 45.349 kb on + strand, within GFF56at 45.349 kb on + strand, within GFF56at 45.357 kb on - strand, within GFF56at 45.357 kb on - strand, within GFF56at 45.358 kb on - strand, within GFF56at 45.384 kb on + strand, within GFF56at 45.392 kb on - strand, within GFF56at 45.416 kb on - strand, within GFF56at 45.418 kb on + strand, within GFF56at 45.426 kb on - strand, within GFF56at 45.426 kb on - strand, within GFF56at 45.458 kb on + strand, within GFF56at 45.463 kb on + strand, within GFF56at 45.465 kb on - strand, within GFF56at 45.477 kb on - strand, within GFF56at 45.482 kb on - strand, within GFF56at 45.484 kb on + strand, within GFF56at 45.488 kb on + strand, within GFF56at 45.495 kb on + strand, within GFF56at 45.495 kb on + strand, within GFF56at 45.501 kb on - strand, within GFF56at 45.513 kb on + strand, within GFF56at 45.514 kb on - strand, within GFF56at 45.518 kb on - strand, within GFF56at 45.523 kb on - strand, within GFF56at 45.532 kb on + strand, within GFF56at 45.532 kb on + strand, within GFF56at 45.532 kb on + strand, within GFF56at 45.540 kb on - strand, within GFF56at 45.540 kb on - strand, within GFF56at 45.540 kb on - strand, within GFF56at 45.540 kb on - strand, within GFF56at 45.544 kb on + strand, within GFF56at 45.544 kb on + strand, within GFF56at 45.544 kb on + strand, within GFF56at 45.552 kb on - strand, within GFF56at 45.552 kb on - strand, within GFF56at 45.554 kb on + strand, within GFF56at 45.557 kb on - strand, within GFF56at 45.557 kb on - strand, within GFF56at 45.559 kb on + strand, within GFF56at 45.559 kb on + strand, within GFF56at 45.559 kb on + strand, within GFF56at 45.562 kb on - strand, within GFF56at 45.564 kb on + strand, within GFF56at 45.567 kb on - strand, within GFF56at 45.567 kb on - strand, within GFF56at 45.567 kb on - strand, within GFF56at 45.567 kb on - strand, within GFF56at 45.567 kb on - strand, within GFF56at 45.567 kb on - strand, within GFF56at 45.572 kb on + strand, within GFF56at 45.580 kb on - strand, within GFF56at 45.609 kb on - strand, within GFF56at 45.634 kb on - strand, within GFF56at 45.650 kb on + strand, within GFF56at 45.658 kb on + strand, within GFF56at 45.658 kb on + strand, within GFF56at 45.666 kb on - strand, within GFF56at 45.666 kb on - strand, within GFF56at 45.666 kb on - strand, within GFF56at 45.668 kb on + strand, within GFF56at 45.682 kb on - strand, within GFF56at 45.682 kb on - strand, within GFF56at 45.707 kb on + strand, within GFF56at 45.712 kb on - strand, within GFF56at 45.732 kb on + strand, within GFF56at 45.743 kb on + strand, within GFF56at 45.763 kb on + strand, within GFF56at 45.763 kb on + strand, within GFF56at 45.771 kb on - strand, within GFF56at 45.789 kb on + strand, within GFF56at 45.789 kb on - strand, within GFF56at 45.789 kb on - strand, within GFF56at 45.790 kb on - strand, within GFF56at 45.812 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.827 kb on + strand, within GFF56at 45.835 kb on - strand, within GFF56at 45.835 kb on - strand, within GFF56at 45.835 kb on - strand, within GFF56at 45.835 kb on - strand, within GFF56at 45.835 kb on - strand, within GFF56at 45.835 kb on - strand, within GFF56at 45.839 kb on + strand, within GFF56at 45.847 kb on + strand, within GFF56at 45.847 kb on + strand, within GFF56at 45.848 kb on - strand, within GFF56at 45.855 kb on - strand, within GFF56at 45.855 kb on - strand, within GFF56at 45.857 kb on + strand, within GFF56at 45.857 kb on + strand, within GFF56at 45.857 kb on + strand, within GFF56at 45.865 kb on - strand, within GFF56at 45.865 kb on - strand, within GFF56at 45.865 kb on - strand, within GFF56at 45.873 kb on - strand, within GFF56at 45.884 kb on + strand, within GFF56at 45.908 kb on + strand, within GFF56at 45.913 kb on + strand, within GFF56at 45.918 kb on + strand, within GFF56at 45.919 kb on + strand, within GFF56at 45.919 kb on + strand, within GFF56at 45.919 kb on + strand, within GFF56at 45.925 kb on - strand, within GFF56at 45.927 kb on - strand, within GFF56at 45.927 kb on - strand, within GFF56at 45.927 kb on - strand, within GFF56at 45.927 kb on - strand, within GFF56at 45.927 kb on - strand, within GFF56at 45.935 kb on + strand, within GFF56at 45.937 kb on - strand, within GFF56at 45.949 kb on + strand, within GFF56at 45.949 kb on - strand, within GFF56at 45.950 kb on + strand, within GFF56at 45.958 kb on + strand, within GFF56at 45.966 kb on - strand, within GFF56at 45.966 kb on - strand, within GFF56at 45.968 kb on + strand, within GFF56at 45.968 kb on + strand, within GFF56at 45.968 kb on + strand, within GFF56at 45.968 kb on + strand, within GFF56at 45.976 kb on - strand, within GFF56at 45.976 kb on - strand, within GFF56at 45.976 kb on - strand, within GFF56at 45.976 kb on - strand, within GFF56at 45.976 kb on - strand, within GFF56at 45.996 kb on + strand, within GFF56at 45.996 kb on + strand, within GFF56at 45.996 kb on + strand, within GFF56at 46.004 kb on - strand, within GFF56at 46.013 kb on + strand, within GFF56at 46.015 kb on + strand, within GFF56at 46.015 kb on + strand, within GFF56at 46.018 kb on + strand, within GFF56at 46.021 kb on - strand, within GFF56at 46.023 kb on - strand, within GFF56at 46.027 kb on + strand, within GFF56at 46.028 kb on - strand, within GFF56at 46.028 kb on - strand, within GFF56at 46.031 kb on + strand, within GFF56at 46.033 kb on - strand, within GFF56at 46.035 kb on - strand, within GFF56at 46.042 kb on + strand, within GFF56at 46.042 kb on + strand, within GFF56at 46.045 kb on - strand, within GFF56at 46.049 kb on - strand, within GFF56at 46.050 kb on - strand, within GFF56at 46.050 kb on - strand, within GFF56at 46.050 kb on - strand, within GFF56at 46.050 kb on - strand, within GFF56at 46.050 kb on - strand, within GFF56at 46.055 kb on + strandat 46.056 kb on + strandat 46.089 kb on + strandat 46.094 kb on + strandat 46.094 kb on + strandat 46.094 kb on + strandat 46.107 kb on - strandat 46.109 kb on + strandat 46.121 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction EMM_noCarbon with Sucrose and Putrescine
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43,544 - GFF53 0.61 -0.2
43,544 - GFF53 0.61 +0.6
43,549 + GFF53 0.62 -2.2
43,549 + GFF53 0.62 +0.6
43,549 + GFF53 0.62 +0.2
43,551 + GFF53 0.62 -0.1
43,553 + GFF53 0.62 -0.8
43,557 - GFF53 0.63 -0.4
43,557 - GFF53 0.63 -0.7
43,559 - GFF53 0.63 -2.5
43,559 - GFF53 0.63 -2.9
43,578 + GFF53 0.65 -0.7
43,586 - GFF53 0.66 -0.1
43,594 - GFF53 0.67 +0.2
43,622 - GFF53 0.71 +0.8
43,642 - GFF53 0.73 -1.1
43,645 + GFF53 0.73 -0.1
43,645 + GFF53 0.73 -0.7
43,659 + GFF53 0.75 -1.8
43,659 + GFF53 0.75 +0.8
43,689 + GFF53 0.79 +0.0
43,704 + GFF53 0.81 -0.1
43,704 + GFF53 0.81 +0.5
43,704 + GFF53 0.81 -1.2
43,712 - GFF53 0.82 +0.2
43,712 - GFF53 0.82 +0.3
43,712 - GFF53 0.82 -0.3
43,712 - GFF53 0.82 +0.3
43,712 - GFF53 0.82 -0.3
43,712 - GFF53 0.82 -0.9
43,712 - GFF53 0.82 -0.5
43,712 - GFF53 0.82 -1.2
43,712 - GFF53 0.82 +0.4
43,712 - GFF53 0.82 -0.2
43,724 + GFF53 0.83 -0.4
43,725 + GFF53 0.83 +0.3
43,729 + GFF53 0.84 +0.5
43,748 + GFF53 0.86 +1.0
43,748 + GFF53 0.86 +0.2
43,748 + GFF53 0.86 -2.0
43,748 + GFF53 0.86 -0.5
43,756 - GFF53 0.87 -1.0
43,756 - GFF53 0.87 -1.0
43,756 - GFF53 0.87 -0.6
43,756 - GFF53 0.87 -1.2
43,756 - GFF53 0.87 +0.3
43,758 + GFF53 0.87 -0.5
43,852 + -1.4
43,852 + -1.0
43,852 + -0.1
43,852 + +0.5
43,852 + +0.2
43,852 + -0.2
43,852 + -0.1
43,860 - -0.9
43,860 - -0.2
43,860 - -0.2
43,860 - +0.2
43,860 - -0.7
43,872 + +0.6
43,874 - +0.4
43,882 + -0.4
44,421 + -0.1
44,421 + -1.5
44,421 + -0.8
44,421 + -0.7
44,429 - +1.4
44,429 - -1.8
44,429 - +0.6
44,429 - +0.3
44,429 - +0.8
44,429 - -0.2
44,429 - +0.1
44,518 - +0.2
44,521 - -1.8
44,537 - -0.7
44,654 - GFF55 0.22 -1.2
44,687 - GFF55 0.27 -1.9
44,688 - GFF55 0.27 -1.2
44,739 - GFF55 0.35 -0.1
44,778 - GFF55 0.42 -1.0
44,869 - GFF55 0.57 -1.1
45,241 + -0.2
45,243 - -0.1
45,246 + -1.4
45,254 - -0.8
45,259 + -0.5
45,267 + +0.1
45,267 - -1.4
45,267 - -0.6
45,267 - -1.2
45,268 + -0.2
45,275 - -0.7
45,275 - -0.1
45,276 - +0.5
45,280 + -1.6
45,280 + +1.1
45,280 + -0.3
45,280 + +0.3
45,280 + -2.2
45,280 + -1.2
45,280 + +0.8
45,280 + -0.1
45,280 + -1.4
45,280 + +0.1
45,288 - -0.8
45,288 - -0.2
45,288 - +0.4
45,288 - +0.6
45,288 - -1.0
45,288 - -0.8
45,288 - -0.1
45,288 - +1.5
45,288 - -0.2
45,288 - +0.0
45,288 - +0.0
45,293 - +1.4
45,325 - +1.4
45,349 + GFF56 0.11 +0.0
45,349 + GFF56 0.11 -0.4
45,349 + GFF56 0.11 -0.6
45,349 + GFF56 0.11 -0.1
45,357 - GFF56 0.12 +0.3
45,357 - GFF56 0.12 +0.8
45,358 - GFF56 0.12 +0.7
45,384 + GFF56 0.15 -0.3
45,392 - GFF56 0.16 -1.4
45,416 - GFF56 0.19 +0.2
45,418 + GFF56 0.19 +1.5
45,426 - GFF56 0.20 -1.0
45,426 - GFF56 0.20 -0.6
45,458 + GFF56 0.23 -0.1
45,463 + GFF56 0.24 +0.6
45,465 - GFF56 0.24 -1.8
45,477 - GFF56 0.26 +1.2
45,482 - GFF56 0.26 -0.5
45,484 + GFF56 0.26 -0.9
45,488 + GFF56 0.27 +0.6
45,495 + GFF56 0.28 +0.0
45,495 + GFF56 0.28 -0.2
45,501 - GFF56 0.28 +0.1
45,513 + GFF56 0.30 -0.7
45,514 - GFF56 0.30 -0.4
45,518 - GFF56 0.30 -0.8
45,523 - GFF56 0.31 -0.0
45,532 + GFF56 0.32 -1.6
45,532 + GFF56 0.32 -0.1
45,532 + GFF56 0.32 +0.3
45,540 - GFF56 0.33 -2.2
45,540 - GFF56 0.33 -0.3
45,540 - GFF56 0.33 +0.1
45,540 - GFF56 0.33 +1.2
45,544 + GFF56 0.33 -2.5
45,544 + GFF56 0.33 +0.3
45,544 + GFF56 0.33 +1.2
45,552 - GFF56 0.34 +0.2
45,552 - GFF56 0.34 +2.0
45,554 + GFF56 0.34 +0.5
45,557 - GFF56 0.35 +0.9
45,557 - GFF56 0.35 -1.4
45,559 + GFF56 0.35 -2.1
45,559 + GFF56 0.35 -0.8
45,559 + GFF56 0.35 -0.8
45,562 - GFF56 0.35 -0.1
45,564 + GFF56 0.35 -2.1
45,567 - GFF56 0.36 +0.9
45,567 - GFF56 0.36 -1.1
45,567 - GFF56 0.36 -1.1
45,567 - GFF56 0.36 -1.2
45,567 - GFF56 0.36 -0.1
45,567 - GFF56 0.36 +0.4
45,572 + GFF56 0.36 -1.4
45,580 - GFF56 0.37 -0.1
45,609 - GFF56 0.40 +0.1
45,634 - GFF56 0.43 +0.2
45,650 + GFF56 0.45 +2.1
45,658 + GFF56 0.46 -1.1
45,658 + GFF56 0.46 -0.3
45,666 - GFF56 0.47 -2.5
45,666 - GFF56 0.47 -0.4
45,666 - GFF56 0.47 +0.4
45,668 + GFF56 0.47 +0.7
45,682 - GFF56 0.49 -0.8
45,682 - GFF56 0.49 -0.7
45,707 + GFF56 0.51 -0.2
45,712 - GFF56 0.52 -0.4
45,732 + GFF56 0.54 -0.2
45,743 + GFF56 0.55 -1.6
45,763 + GFF56 0.58 +1.0
45,763 + GFF56 0.58 -0.8
45,771 - GFF56 0.59 +0.1
45,789 + GFF56 0.61 -0.4
45,789 - GFF56 0.61 -1.8
45,789 - GFF56 0.61 +0.6
45,790 - GFF56 0.61 -1.2
45,812 + GFF56 0.63 -1.9
45,827 + GFF56 0.65 -1.7
45,827 + GFF56 0.65 +1.4
45,827 + GFF56 0.65 +0.4
45,827 + GFF56 0.65 -1.5
45,827 + GFF56 0.65 +0.7
45,827 + GFF56 0.65 +1.3
45,827 + GFF56 0.65 +1.2
45,827 + GFF56 0.65 +0.8
45,827 + GFF56 0.65 -0.2
45,827 + GFF56 0.65 -0.7
45,835 - GFF56 0.66 -0.2
45,835 - GFF56 0.66 +1.1
45,835 - GFF56 0.66 -0.8
45,835 - GFF56 0.66 -0.8
45,835 - GFF56 0.66 -1.8
45,835 - GFF56 0.66 +1.0
45,839 + GFF56 0.66 -0.6
45,847 + GFF56 0.67 +1.2
45,847 + GFF56 0.67 +1.0
45,848 - GFF56 0.67 +0.1
45,855 - GFF56 0.68 -0.4
45,855 - GFF56 0.68 -0.3
45,857 + GFF56 0.68 +0.3
45,857 + GFF56 0.68 -1.2
45,857 + GFF56 0.68 +0.5
45,865 - GFF56 0.69 +1.2
45,865 - GFF56 0.69 -0.1
45,865 - GFF56 0.69 +1.3
45,873 - GFF56 0.70 -2.2
45,884 + GFF56 0.71 -1.1
45,908 + GFF56 0.74 -0.8
45,913 + GFF56 0.75 -0.8
45,918 + GFF56 0.75 -2.1
45,919 + GFF56 0.75 +0.9
45,919 + GFF56 0.75 -2.0
45,919 + GFF56 0.75 -2.2
45,925 - GFF56 0.76 +0.1
45,927 - GFF56 0.76 -1.2
45,927 - GFF56 0.76 +0.2
45,927 - GFF56 0.76 -0.1
45,927 - GFF56 0.76 +1.1
45,927 - GFF56 0.76 +0.6
45,935 + GFF56 0.77 -0.5
45,937 - GFF56 0.77 +0.7
45,949 + GFF56 0.79 -0.5
45,949 - GFF56 0.79 -0.7
45,950 + GFF56 0.79 -2.1
45,958 + GFF56 0.80 -1.0
45,966 - GFF56 0.80 -0.9
45,966 - GFF56 0.80 -0.7
45,968 + GFF56 0.81 +1.3
45,968 + GFF56 0.81 +1.1
45,968 + GFF56 0.81 -0.3
45,968 + GFF56 0.81 +0.1
45,976 - GFF56 0.82 +0.2
45,976 - GFF56 0.82 +0.7
45,976 - GFF56 0.82 -0.4
45,976 - GFF56 0.82 -1.5
45,976 - GFF56 0.82 -0.5
45,996 + GFF56 0.84 +0.0
45,996 + GFF56 0.84 +1.3
45,996 + GFF56 0.84 +0.0
46,004 - GFF56 0.85 -0.4
46,013 + GFF56 0.86 -0.2
46,015 + GFF56 0.86 +0.3
46,015 + GFF56 0.86 -0.7
46,018 + GFF56 0.86 +0.9
46,021 - GFF56 0.87 -0.8
46,023 - GFF56 0.87 -1.3
46,027 + GFF56 0.87 -0.8
46,028 - GFF56 0.87 -2.7
46,028 - GFF56 0.87 -1.6
46,031 + GFF56 0.88 -0.6
46,033 - GFF56 0.88 +1.3
46,035 - GFF56 0.88 +0.6
46,042 + GFF56 0.89 -1.4
46,042 + GFF56 0.89 -0.9
46,045 - GFF56 0.89 -0.8
46,049 - GFF56 0.90 +1.1
46,050 - GFF56 0.90 +0.5
46,050 - GFF56 0.90 +1.3
46,050 - GFF56 0.90 -0.1
46,050 - GFF56 0.90 -0.4
46,050 - GFF56 0.90 +0.7
46,055 + -1.0
46,056 + -0.2
46,089 + -1.0
46,094 + -1.4
46,094 + -0.7
46,094 + -1.1
46,107 - +0.3
46,109 + -0.7
46,121 + +1.2

Or see this region's nucleotide sequence