Strain Fitness in Sphingobium sp. HT1-2 around GFF38

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 ntGFF35 and GFF36 are separated by 79 nucleotidesGFF36 and GFF37 are separated by 127 nucleotidesGFF37 and GFF38 are separated by 28 nucleotidesGFF38 and GFF39 overlap by 4 nucleotides GFF35 - hypothetical protein, at 28,073 to 28,234 GFF35 GFF36 - hypothetical protein, at 28,314 to 28,754 GFF36 GFF37 - tRNA-Thr-TGT, at 28,882 to 28,956 GFF37 GFF38 - FIG00636030: hypothetical protein, at 28,985 to 29,842 GFF38 GFF39 - Replication-associated recombination protein RarA, at 29,839 to 31,152 GFF39 Position (kb) 28 29 30Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 27.985 kb on - strandat 27.994 kb on + strandat 28.000 kb on + strandat 28.005 kb on + strandat 28.005 kb on + strandat 28.008 kb on - strandat 28.014 kb on + strandat 28.028 kb on - strandat 28.039 kb on + strandat 28.055 kb on - strandat 28.056 kb on - strandat 28.063 kb on - strandat 28.063 kb on - strandat 28.063 kb on - strandat 28.063 kb on - strandat 28.086 kb on + strandat 28.087 kb on + strandat 28.094 kb on - strand, within GFF35at 28.144 kb on - strand, within GFF35at 28.164 kb on + strand, within GFF35at 28.172 kb on - strand, within GFF35at 28.172 kb on - strand, within GFF35at 28.172 kb on - strand, within GFF35at 28.172 kb on - strand, within GFF35at 28.172 kb on - strand, within GFF35at 28.215 kb on + strand, within GFF35at 28.215 kb on + strand, within GFF35at 28.223 kb on - strandat 28.311 kb on + strandat 28.311 kb on + strandat 28.369 kb on + strand, within GFF36at 28.373 kb on + strand, within GFF36at 28.387 kb on - strand, within GFF36at 28.387 kb on - strand, within GFF36at 28.425 kb on - strand, within GFF36at 28.433 kb on + strand, within GFF36at 28.433 kb on + strand, within GFF36at 28.436 kb on - strand, within GFF36at 28.441 kb on - strand, within GFF36at 28.441 kb on - strand, within GFF36at 28.441 kb on - strand, within GFF36at 28.441 kb on - strand, within GFF36at 28.441 kb on - strand, within GFF36at 28.443 kb on + strand, within GFF36at 28.443 kb on + strand, within GFF36at 28.443 kb on + strand, within GFF36at 28.445 kb on + strand, within GFF36at 28.451 kb on - strand, within GFF36at 28.451 kb on - strand, within GFF36at 28.451 kb on - strand, within GFF36at 28.457 kb on + strand, within GFF36at 28.467 kb on + strand, within GFF36at 28.475 kb on - strand, within GFF36at 28.475 kb on - strand, within GFF36at 28.498 kb on - strand, within GFF36at 28.498 kb on - strand, within GFF36at 28.498 kb on - strand, within GFF36at 28.498 kb on - strand, within GFF36at 28.514 kb on - strand, within GFF36at 28.514 kb on - strand, within GFF36at 28.521 kb on + strand, within GFF36at 28.616 kb on + strand, within GFF36at 28.616 kb on + strand, within GFF36at 28.616 kb on + strand, within GFF36at 28.624 kb on - strand, within GFF36at 28.624 kb on - strand, within GFF36at 28.624 kb on - strand, within GFF36at 28.624 kb on - strand, within GFF36at 28.624 kb on - strand, within GFF36at 28.627 kb on - strand, within GFF36at 28.658 kb on + strand, within GFF36at 28.659 kb on + strand, within GFF36at 28.660 kb on - strand, within GFF36at 28.666 kb on - strand, within GFF36at 28.666 kb on - strand, within GFF36at 28.666 kb on - strand, within GFF36at 28.666 kb on - strand, within GFF36at 28.666 kb on - strand, within GFF36at 28.667 kb on - strand, within GFF36at 28.725 kb on + strandat 28.733 kb on - strandat 28.772 kb on - strandat 29.001 kb on + strandat 29.001 kb on + strandat 29.001 kb on + strandat 29.001 kb on + strandat 29.001 kb on + strandat 29.009 kb on - strandat 29.009 kb on - strandat 29.036 kb on + strandat 29.036 kb on + strandat 29.044 kb on - strandat 29.093 kb on + strand, within GFF38at 29.101 kb on - strand, within GFF38at 29.105 kb on + strand, within GFF38at 29.145 kb on + strand, within GFF38at 29.151 kb on + strand, within GFF38at 29.171 kb on - strand, within GFF38at 29.212 kb on + strand, within GFF38at 29.229 kb on + strand, within GFF38at 29.286 kb on + strand, within GFF38at 29.286 kb on + strand, within GFF38at 29.291 kb on + strand, within GFF38at 29.291 kb on + strand, within GFF38at 29.350 kb on - strand, within GFF38at 29.390 kb on - strand, within GFF38at 29.417 kb on - strand, within GFF38at 29.457 kb on + strand, within GFF38at 29.457 kb on + strand, within GFF38at 29.463 kb on + strand, within GFF38at 29.465 kb on - strand, within GFF38at 29.465 kb on - strand, within GFF38at 29.494 kb on - strand, within GFF38at 29.496 kb on + strand, within GFF38at 29.496 kb on - strand, within GFF38at 29.504 kb on - strand, within GFF38at 29.506 kb on + strand, within GFF38at 29.514 kb on - strand, within GFF38at 29.521 kb on + strand, within GFF38at 29.577 kb on + strand, within GFF38at 29.585 kb on - strand, within GFF38at 29.596 kb on + strand, within GFF38at 29.596 kb on + strand, within GFF38at 29.596 kb on + strand, within GFF38at 29.596 kb on + strand, within GFF38at 29.618 kb on + strand, within GFF38at 29.618 kb on + strand, within GFF38at 29.618 kb on + strand, within GFF38at 29.618 kb on + strand, within GFF38at 29.626 kb on - strand, within GFF38at 29.626 kb on - strand, within GFF38at 29.630 kb on + strand, within GFF38at 29.635 kb on + strand, within GFF38at 29.642 kb on + strand, within GFF38at 29.642 kb on + strand, within GFF38at 29.653 kb on - strand, within GFF38at 29.658 kb on - strand, within GFF38at 29.659 kb on - strand, within GFF38at 29.670 kb on + strand, within GFF38at 29.676 kb on - strand, within GFF38at 29.676 kb on - strand, within GFF38at 29.678 kb on - strand, within GFF38at 29.721 kb on + strand, within GFF38at 29.731 kb on + strand, within GFF38at 29.744 kb on - strand, within GFF38at 29.750 kb on - strand, within GFF38at 29.767 kb on - strandat 29.769 kb on + strandat 29.775 kb on + strandat 29.777 kb on - strandat 29.783 kb on - strandat 29.783 kb on - strandat 29.834 kb on + strandat 29.950 kb on - strandat 29.952 kb on - strandat 30.017 kb on + strand, within GFF39at 30.035 kb on + strand, within GFF39at 30.058 kb on + strand, within GFF39at 30.095 kb on + strand, within GFF39at 30.103 kb on - strand, within GFF39at 30.103 kb on - strand, within GFF39at 30.103 kb on - strand, within GFF39at 30.109 kb on + strand, within GFF39at 30.111 kb on + strand, within GFF39at 30.117 kb on + strand, within GFF39at 30.163 kb on + strand, within GFF39at 30.163 kb on + strand, within GFF39at 30.171 kb on - strand, within GFF39at 30.193 kb on - strand, within GFF39at 30.232 kb on + strand, within GFF39at 30.234 kb on + strand, within GFF39at 30.237 kb on - strand, within GFF39at 30.240 kb on - strand, within GFF39at 30.300 kb on - strand, within GFF39at 30.346 kb on - strand, within GFF39at 30.346 kb on - strand, within GFF39at 30.346 kb on - strand, within GFF39at 30.346 kb on - strand, within GFF39at 30.360 kb on + strand, within GFF39at 30.360 kb on + strand, within GFF39at 30.403 kb on + strand, within GFF39at 30.407 kb on - strand, within GFF39at 30.411 kb on - strand, within GFF39at 30.430 kb on - strand, within GFF39at 30.445 kb on + strand, within GFF39at 30.453 kb on + strand, within GFF39at 30.467 kb on + strand, within GFF39at 30.506 kb on + strand, within GFF39at 30.514 kb on - strand, within GFF39at 30.545 kb on + strand, within GFF39at 30.545 kb on + strand, within GFF39at 30.550 kb on + strand, within GFF39at 30.555 kb on + strand, within GFF39at 30.558 kb on - strand, within GFF39at 30.558 kb on - strand, within GFF39at 30.558 kb on - strand, within GFF39at 30.560 kb on + strand, within GFF39at 30.563 kb on - strand, within GFF39at 30.568 kb on - strand, within GFF39at 30.606 kb on - strand, within GFF39at 30.624 kb on - strand, within GFF39at 30.641 kb on + strand, within GFF39at 30.674 kb on + strand, within GFF39at 30.676 kb on + strand, within GFF39at 30.676 kb on + strand, within GFF39at 30.676 kb on + strand, within GFF39at 30.676 kb on + strand, within GFF39at 30.676 kb on + strand, within GFF39at 30.684 kb on - strand, within GFF39at 30.732 kb on + strand, within GFF39at 30.740 kb on + strand, within GFF39at 30.740 kb on - strand, within GFF39at 30.740 kb on - strand, within GFF39at 30.755 kb on - strand, within GFF39at 30.767 kb on + strand, within GFF39at 30.772 kb on - strand, within GFF39at 30.792 kb on - strand, within GFF39at 30.811 kb on + strand, within GFF39at 30.842 kb on - strand, within GFF39

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Per-strain Table

Position Strand Gene LocusTag Fraction EMM_noCarbon with Sucrose and Putrescine
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27,985 - -0.6
27,994 + -0.4
28,000 + -0.4
28,005 + -0.8
28,005 + +0.0
28,008 - +0.3
28,014 + -0.5
28,028 - +0.5
28,039 + -2.2
28,055 - +0.7
28,056 - +0.3
28,063 - +0.0
28,063 - +0.3
28,063 - -0.9
28,063 - +0.7
28,086 + -0.2
28,087 + -1.4
28,094 - GFF35 0.13 -0.1
28,144 - GFF35 0.44 +0.8
28,164 + GFF35 0.56 -0.8
28,172 - GFF35 0.61 -2.8
28,172 - GFF35 0.61 -0.1
28,172 - GFF35 0.61 -0.3
28,172 - GFF35 0.61 +0.6
28,172 - GFF35 0.61 -0.6
28,215 + GFF35 0.88 -0.3
28,215 + GFF35 0.88 -1.2
28,223 - -0.2
28,311 + +0.3
28,311 + +0.1
28,369 + GFF36 0.12 -1.9
28,373 + GFF36 0.13 -0.2
28,387 - GFF36 0.17 -0.0
28,387 - GFF36 0.17 -1.9
28,425 - GFF36 0.25 +1.8
28,433 + GFF36 0.27 -0.7
28,433 + GFF36 0.27 -1.3
28,436 - GFF36 0.28 -0.0
28,441 - GFF36 0.29 -1.3
28,441 - GFF36 0.29 -0.4
28,441 - GFF36 0.29 -0.5
28,441 - GFF36 0.29 +0.9
28,441 - GFF36 0.29 +1.3
28,443 + GFF36 0.29 +0.0
28,443 + GFF36 0.29 +0.9
28,443 + GFF36 0.29 -2.1
28,445 + GFF36 0.30 +1.3
28,451 - GFF36 0.31 +0.2
28,451 - GFF36 0.31 -1.3
28,451 - GFF36 0.31 -1.5
28,457 + GFF36 0.32 -1.5
28,467 + GFF36 0.35 -0.7
28,475 - GFF36 0.37 +0.0
28,475 - GFF36 0.37 +1.4
28,498 - GFF36 0.42 -0.1
28,498 - GFF36 0.42 +1.5
28,498 - GFF36 0.42 -0.8
28,498 - GFF36 0.42 -0.2
28,514 - GFF36 0.45 +0.4
28,514 - GFF36 0.45 +1.2
28,521 + GFF36 0.47 -1.6
28,616 + GFF36 0.68 -1.0
28,616 + GFF36 0.68 -0.8
28,616 + GFF36 0.68 -0.8
28,624 - GFF36 0.70 +0.3
28,624 - GFF36 0.70 -0.4
28,624 - GFF36 0.70 +0.1
28,624 - GFF36 0.70 +0.4
28,624 - GFF36 0.70 +0.7
28,627 - GFF36 0.71 +0.1
28,658 + GFF36 0.78 +0.5
28,659 + GFF36 0.78 -0.1
28,660 - GFF36 0.78 -0.8
28,666 - GFF36 0.80 +1.4
28,666 - GFF36 0.80 +1.0
28,666 - GFF36 0.80 -2.3
28,666 - GFF36 0.80 -0.1
28,666 - GFF36 0.80 +0.0
28,667 - GFF36 0.80 +0.3
28,725 + +0.2
28,733 - +0.8
28,772 - +0.4
29,001 + +0.9
29,001 + -0.6
29,001 + +0.1
29,001 + +0.7
29,001 + +0.2
29,009 - -1.0
29,009 - -1.1
29,036 + +0.4
29,036 + -2.0
29,044 - +0.2
29,093 + GFF38 0.13 +0.2
29,101 - GFF38 0.14 -0.1
29,105 + GFF38 0.14 -0.7
29,145 + GFF38 0.19 +0.1
29,151 + GFF38 0.19 -0.2
29,171 - GFF38 0.22 +0.6
29,212 + GFF38 0.26 -1.2
29,229 + GFF38 0.28 +0.3
29,286 + GFF38 0.35 +0.9
29,286 + GFF38 0.35 +0.3
29,291 + GFF38 0.36 +1.7
29,291 + GFF38 0.36 -0.6
29,350 - GFF38 0.43 +0.1
29,390 - GFF38 0.47 +0.6
29,417 - GFF38 0.50 -1.3
29,457 + GFF38 0.55 -1.1
29,457 + GFF38 0.55 +0.3
29,463 + GFF38 0.56 -0.3
29,465 - GFF38 0.56 -0.4
29,465 - GFF38 0.56 -0.2
29,494 - GFF38 0.59 +0.2
29,496 + GFF38 0.60 +0.3
29,496 - GFF38 0.60 -1.7
29,504 - GFF38 0.60 +0.9
29,506 + GFF38 0.61 -1.6
29,514 - GFF38 0.62 +0.5
29,521 + GFF38 0.62 -1.1
29,577 + GFF38 0.69 -1.8
29,585 - GFF38 0.70 +1.0
29,596 + GFF38 0.71 -2.0
29,596 + GFF38 0.71 -0.3
29,596 + GFF38 0.71 -0.2
29,596 + GFF38 0.71 -1.8
29,618 + GFF38 0.74 +1.7
29,618 + GFF38 0.74 +0.1
29,618 + GFF38 0.74 -0.8
29,618 + GFF38 0.74 +1.3
29,626 - GFF38 0.75 +1.5
29,626 - GFF38 0.75 -0.2
29,630 + GFF38 0.75 -1.4
29,635 + GFF38 0.76 +0.3
29,642 + GFF38 0.77 -0.6
29,642 + GFF38 0.77 -2.1
29,653 - GFF38 0.78 +1.1
29,658 - GFF38 0.78 -0.6
29,659 - GFF38 0.79 -0.4
29,670 + GFF38 0.80 -0.6
29,676 - GFF38 0.81 +0.3
29,676 - GFF38 0.81 -0.5
29,678 - GFF38 0.81 -0.9
29,721 + GFF38 0.86 -0.8
29,731 + GFF38 0.87 -1.7
29,744 - GFF38 0.88 +0.7
29,750 - GFF38 0.89 +1.3
29,767 - +0.3
29,769 + +0.1
29,775 + -0.3
29,777 - +0.3
29,783 - +2.3
29,783 - +0.1
29,834 + +0.2
29,950 - +0.9
29,952 - -0.7
30,017 + GFF39 0.14 +0.1
30,035 + GFF39 0.15 +1.0
30,058 + GFF39 0.17 -1.7
30,095 + GFF39 0.19 -0.2
30,103 - GFF39 0.20 -0.3
30,103 - GFF39 0.20 -0.3
30,103 - GFF39 0.20 +1.4
30,109 + GFF39 0.21 +0.1
30,111 + GFF39 0.21 +1.0
30,117 + GFF39 0.21 +0.8
30,163 + GFF39 0.25 -0.8
30,163 + GFF39 0.25 +0.6
30,171 - GFF39 0.25 +0.1
30,193 - GFF39 0.27 +0.2
30,232 + GFF39 0.30 -0.1
30,234 + GFF39 0.30 -2.3
30,237 - GFF39 0.30 -2.3
30,240 - GFF39 0.31 +0.0
30,300 - GFF39 0.35 +0.8
30,346 - GFF39 0.39 +0.4
30,346 - GFF39 0.39 +0.0
30,346 - GFF39 0.39 -0.2
30,346 - GFF39 0.39 -0.6
30,360 + GFF39 0.40 +0.2
30,360 + GFF39 0.40 +0.6
30,403 + GFF39 0.43 +0.0
30,407 - GFF39 0.43 -0.5
30,411 - GFF39 0.44 +0.7
30,430 - GFF39 0.45 +0.5
30,445 + GFF39 0.46 +0.8
30,453 + GFF39 0.47 +0.5
30,467 + GFF39 0.48 +0.1
30,506 + GFF39 0.51 +0.6
30,514 - GFF39 0.51 +0.6
30,545 + GFF39 0.54 +0.7
30,545 + GFF39 0.54 +0.0
30,550 + GFF39 0.54 +2.0
30,555 + GFF39 0.54 +0.2
30,558 - GFF39 0.55 -0.6
30,558 - GFF39 0.55 -1.1
30,558 - GFF39 0.55 +1.0
30,560 + GFF39 0.55 +0.1
30,563 - GFF39 0.55 +0.7
30,568 - GFF39 0.55 +1.1
30,606 - GFF39 0.58 -1.0
30,624 - GFF39 0.60 -0.0
30,641 + GFF39 0.61 +0.2
30,674 + GFF39 0.64 -0.3
30,676 + GFF39 0.64 +0.8
30,676 + GFF39 0.64 -1.1
30,676 + GFF39 0.64 +0.3
30,676 + GFF39 0.64 +0.2
30,676 + GFF39 0.64 +2.0
30,684 - GFF39 0.64 +0.3
30,732 + GFF39 0.68 +0.7
30,740 + GFF39 0.69 +0.6
30,740 - GFF39 0.69 -1.3
30,740 - GFF39 0.69 +0.8
30,755 - GFF39 0.70 +0.7
30,767 + GFF39 0.71 +0.2
30,772 - GFF39 0.71 +0.7
30,792 - GFF39 0.73 +1.0
30,811 + GFF39 0.74 +0.7
30,842 - GFF39 0.76 +0.2

Or see this region's nucleotide sequence