Strain Fitness in Variovorax sp. SCN45 around GFF3349

Experiment: M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 mg/mL

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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 ntGFF3347 and GFF3348 are separated by 4 nucleotidesGFF3348 and GFF3349 are separated by 160 nucleotidesGFF3349 and GFF3350 are separated by 3 nucleotides GFF3347 - Adenylate cyclase (EC 4.6.1.1), at 170,036 to 170,557 GFF3347 GFF3348 - Putative lipase, at 170,562 to 171,203 GFF3348 GFF3349 - Branched-chain amino acid ABC transporter, substrate-binding protein LivJ (TC 3.A.1.4.1), at 171,364 to 172,545 GFF3349 GFF3350 - ABC transporter, permease protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) / ABC transporter, permease protein 2 (cluster 4, leucine/isoleucine/valine/benzoate), at 172,549 to 174,378 GFF3350 Position (kb) 171 172 173Strain fitness (log2 ratio) -2 -1 0 1 2at 170.528 kb on + strandat 170.529 kb on - strandat 170.618 kb on - strandat 170.680 kb on + strand, within GFF3348at 170.680 kb on + strand, within GFF3348at 170.681 kb on - strand, within GFF3348at 170.681 kb on - strand, within GFF3348at 170.728 kb on + strand, within GFF3348at 170.729 kb on - strand, within GFF3348at 170.729 kb on - strand, within GFF3348at 170.729 kb on - strand, within GFF3348at 170.729 kb on - strand, within GFF3348at 170.729 kb on - strand, within GFF3348at 170.917 kb on + strand, within GFF3348at 170.918 kb on - strand, within GFF3348at 171.217 kb on + strandat 171.218 kb on - strandat 171.269 kb on + strandat 171.269 kb on + strandat 171.410 kb on + strandat 171.518 kb on - strand, within GFF3349at 171.518 kb on - strand, within GFF3349at 171.601 kb on + strand, within GFF3349at 171.601 kb on + strand, within GFF3349at 171.733 kb on + strand, within GFF3349at 171.766 kb on - strand, within GFF3349at 171.802 kb on + strand, within GFF3349at 171.802 kb on + strand, within GFF3349at 171.802 kb on + strand, within GFF3349at 171.803 kb on - strand, within GFF3349at 171.803 kb on - strand, within GFF3349at 171.899 kb on - strand, within GFF3349at 171.988 kb on + strand, within GFF3349at 172.069 kb on + strand, within GFF3349at 172.070 kb on - strand, within GFF3349at 172.070 kb on - strand, within GFF3349at 172.150 kb on + strand, within GFF3349at 172.151 kb on - strand, within GFF3349at 172.151 kb on - strand, within GFF3349at 172.274 kb on - strand, within GFF3349at 172.274 kb on - strand, within GFF3349at 172.274 kb on - strand, within GFF3349at 172.303 kb on + strand, within GFF3349at 172.325 kb on - strand, within GFF3349at 172.391 kb on - strand, within GFF3349at 172.573 kb on + strandat 172.574 kb on - strandat 172.606 kb on + strandat 172.607 kb on - strandat 172.682 kb on - strandat 172.682 kb on - strandat 172.696 kb on + strandat 172.697 kb on - strandat 172.697 kb on - strandat 172.720 kb on + strandat 172.721 kb on - strandat 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.182 kb on + strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.183 kb on - strand, within GFF3350at 173.185 kb on + strand, within GFF3350at 173.185 kb on + strand, within GFF3350at 173.186 kb on - strand, within GFF3350at 173.186 kb on - strand, within GFF3350at 173.315 kb on - strand, within GFF3350at 173.315 kb on - strand, within GFF3350at 173.378 kb on + strand, within GFF3350at 173.378 kb on + strand, within GFF3350at 173.545 kb on + strand, within GFF3350

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 mg/mL
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170,528 + +0.1
170,529 - -0.2
170,618 - -0.1
170,680 + GFF3348 0.18 -0.4
170,680 + GFF3348 0.18 -0.2
170,681 - GFF3348 0.19 -2.5
170,681 - GFF3348 0.19 +0.1
170,728 + GFF3348 0.26 +0.5
170,729 - GFF3348 0.26 +0.2
170,729 - GFF3348 0.26 -0.7
170,729 - GFF3348 0.26 +0.3
170,729 - GFF3348 0.26 -0.4
170,729 - GFF3348 0.26 -0.2
170,917 + GFF3348 0.55 -0.5
170,918 - GFF3348 0.55 -0.2
171,217 + -0.5
171,218 - +0.7
171,269 + +1.4
171,269 + -0.1
171,410 + +1.8
171,518 - GFF3349 0.13 +0.0
171,518 - GFF3349 0.13 +0.3
171,601 + GFF3349 0.20 -1.0
171,601 + GFF3349 0.20 +0.2
171,733 + GFF3349 0.31 +1.6
171,766 - GFF3349 0.34 +1.4
171,802 + GFF3349 0.37 +0.2
171,802 + GFF3349 0.37 +0.5
171,802 + GFF3349 0.37 -0.0
171,803 - GFF3349 0.37 -1.5
171,803 - GFF3349 0.37 -0.3
171,899 - GFF3349 0.45 -0.2
171,988 + GFF3349 0.53 -0.3
172,069 + GFF3349 0.60 -1.1
172,070 - GFF3349 0.60 -0.0
172,070 - GFF3349 0.60 +0.0
172,150 + GFF3349 0.66 -0.0
172,151 - GFF3349 0.67 -1.2
172,151 - GFF3349 0.67 +0.7
172,274 - GFF3349 0.77 +1.8
172,274 - GFF3349 0.77 +0.7
172,274 - GFF3349 0.77 +0.6
172,303 + GFF3349 0.79 +0.8
172,325 - GFF3349 0.81 -0.7
172,391 - GFF3349 0.87 -0.4
172,573 + -0.5
172,574 - -0.0
172,606 + -0.9
172,607 - -1.1
172,682 - -2.1
172,682 - +0.1
172,696 + -0.6
172,697 - +0.5
172,697 - +0.1
172,720 + -0.1
172,721 - +0.0
173,182 + GFF3350 0.35 +1.1
173,182 + GFF3350 0.35 -1.0
173,182 + GFF3350 0.35 +0.1
173,182 + GFF3350 0.35 -1.9
173,182 + GFF3350 0.35 -0.6
173,182 + GFF3350 0.35 +0.0
173,182 + GFF3350 0.35 +0.4
173,182 + GFF3350 0.35 +0.8
173,182 + GFF3350 0.35 -1.0
173,182 + GFF3350 0.35 +0.3
173,182 + GFF3350 0.35 -0.1
173,182 + GFF3350 0.35 -0.7
173,182 + GFF3350 0.35 +0.0
173,182 + GFF3350 0.35 -0.7
173,183 - GFF3350 0.35 +0.1
173,183 - GFF3350 0.35 +0.2
173,183 - GFF3350 0.35 +0.3
173,183 - GFF3350 0.35 -0.3
173,183 - GFF3350 0.35 -0.5
173,183 - GFF3350 0.35 +0.5
173,183 - GFF3350 0.35 -0.4
173,183 - GFF3350 0.35 -0.6
173,183 - GFF3350 0.35 -1.9
173,183 - GFF3350 0.35 +0.3
173,185 + GFF3350 0.35 -0.1
173,185 + GFF3350 0.35 -0.4
173,186 - GFF3350 0.35 -1.0
173,186 - GFF3350 0.35 -0.1
173,315 - GFF3350 0.42 +0.2
173,315 - GFF3350 0.42 -0.3
173,378 + GFF3350 0.45 +0.6
173,378 + GFF3350 0.45 -0.5
173,545 + GFF3350 0.54 +0.3

Or see this region's nucleotide sequence