Strain Fitness in Variovorax sp. SCN45 around GFF3350

Experiment: phage_bap4

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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 ntGFF3349 and GFF3350 are separated by 3 nucleotidesGFF3350 and GFF3351 are separated by 14 nucleotidesGFF3351 and GFF3352 overlap by 17 nucleotides 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 GFF3351 - FIG00458971: hypothetical protein, at 174,393 to 174,950 GFF3351 GFF3352 - Branched-chain amino acid ABC transporter, ATP-binding protein LivG (TC 3.A.1.4.1), at 174,934 to 175,776 GFF3352 Position (kb) 172 173 174 175Strain fitness (log2 ratio) -2 -1 0 1 2at 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 GFF3350at 173.546 kb on - strand, within GFF3350at 173.546 kb on - strand, within GFF3350at 173.579 kb on - strand, within GFF3350at 173.669 kb on - strand, within GFF3350at 173.794 kb on + strand, within GFF3350at 173.794 kb on + strand, within GFF3350at 173.794 kb on + strand, within GFF3350at 173.794 kb on + strand, within GFF3350at 173.795 kb on - strand, within GFF3350at 173.941 kb on + strand, within GFF3350at 173.941 kb on + strand, within GFF3350at 173.941 kb on + strand, within GFF3350at 173.942 kb on - strand, within GFF3350at 174.079 kb on + strand, within GFF3350at 174.080 kb on - strand, within GFF3350at 174.148 kb on + strand, within GFF3350at 174.148 kb on + strand, within GFF3350at 174.149 kb on - strand, within GFF3350at 174.149 kb on - strand, within GFF3350at 174.149 kb on - strand, within GFF3350at 174.154 kb on + strand, within GFF3350at 174.154 kb on + strand, within GFF3350at 174.155 kb on - strand, within GFF3350at 174.155 kb on - strand, within GFF3350at 174.155 kb on - strand, within GFF3350at 174.317 kb on - strandat 174.336 kb on - strandat 174.411 kb on + strandat 174.412 kb on - strandat 174.412 kb on - strandat 174.585 kb on + strand, within GFF3351at 174.586 kb on - strand, within GFF3351at 174.586 kb on - strand, within GFF3351at 174.586 kb on - strand, within GFF3351at 174.780 kb on + strand, within GFF3351

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Per-strain Table

Position Strand Gene LocusTag Fraction phage_bap4
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171,601 + GFF3349 0.20 +0.1
171,601 + GFF3349 0.20 -1.0
171,733 + GFF3349 0.31 +1.0
171,766 - GFF3349 0.34 +0.8
171,802 + GFF3349 0.37 +0.2
171,802 + GFF3349 0.37 -0.9
171,802 + GFF3349 0.37 +0.4
171,803 - GFF3349 0.37 -0.8
171,803 - GFF3349 0.37 -0.1
171,899 - GFF3349 0.45 -0.3
171,988 + GFF3349 0.53 -0.6
172,069 + GFF3349 0.60 -1.5
172,070 - GFF3349 0.60 -0.6
172,070 - GFF3349 0.60 -0.6
172,150 + GFF3349 0.66 -0.9
172,151 - GFF3349 0.67 +0.5
172,151 - GFF3349 0.67 -0.9
172,274 - GFF3349 0.77 +0.2
172,274 - GFF3349 0.77 +0.2
172,274 - GFF3349 0.77 -0.1
172,303 + GFF3349 0.79 +1.8
172,325 - GFF3349 0.81 -0.1
172,391 - GFF3349 0.87 -2.3
172,573 + -0.3
172,574 - +1.0
172,606 + -0.6
172,607 - -1.0
172,682 - +0.8
172,682 - -0.1
172,696 + -0.0
172,697 - -1.0
172,697 - +0.6
172,720 + -0.3
172,721 - +0.4
173,182 + GFF3350 0.35 -1.0
173,182 + GFF3350 0.35 +0.2
173,182 + GFF3350 0.35 -0.5
173,182 + GFF3350 0.35 +0.5
173,182 + GFF3350 0.35 -0.1
173,182 + GFF3350 0.35 -0.4
173,182 + GFF3350 0.35 -1.4
173,182 + GFF3350 0.35 -1.9
173,182 + GFF3350 0.35 -0.2
173,182 + GFF3350 0.35 -0.5
173,182 + GFF3350 0.35 -0.5
173,182 + GFF3350 0.35 -0.5
173,182 + GFF3350 0.35 -0.4
173,182 + GFF3350 0.35 -0.7
173,183 - GFF3350 0.35 -0.7
173,183 - GFF3350 0.35 +0.2
173,183 - GFF3350 0.35 +0.4
173,183 - GFF3350 0.35 +0.3
173,183 - GFF3350 0.35 -0.1
173,183 - GFF3350 0.35 -1.0
173,183 - GFF3350 0.35 -1.2
173,183 - GFF3350 0.35 -2.0
173,183 - GFF3350 0.35 -0.4
173,183 - GFF3350 0.35 +0.8
173,185 + GFF3350 0.35 -0.7
173,185 + GFF3350 0.35 -0.6
173,186 - GFF3350 0.35 -0.7
173,186 - GFF3350 0.35 -0.9
173,315 - GFF3350 0.42 -1.3
173,315 - GFF3350 0.42 +0.3
173,378 + GFF3350 0.45 -1.2
173,378 + GFF3350 0.45 -0.5
173,545 + GFF3350 0.54 -0.4
173,546 - GFF3350 0.54 -0.2
173,546 - GFF3350 0.54 -0.7
173,579 - GFF3350 0.56 -0.4
173,669 - GFF3350 0.61 -0.3
173,794 + GFF3350 0.68 -1.6
173,794 + GFF3350 0.68 -1.4
173,794 + GFF3350 0.68 +0.1
173,794 + GFF3350 0.68 +0.1
173,795 - GFF3350 0.68 -0.3
173,941 + GFF3350 0.76 +0.5
173,941 + GFF3350 0.76 -0.4
173,941 + GFF3350 0.76 +0.5
173,942 - GFF3350 0.76 -2.0
174,079 + GFF3350 0.84 +0.9
174,080 - GFF3350 0.84 +0.4
174,148 + GFF3350 0.87 +1.0
174,148 + GFF3350 0.87 +0.2
174,149 - GFF3350 0.87 +0.4
174,149 - GFF3350 0.87 -0.5
174,149 - GFF3350 0.87 -0.5
174,154 + GFF3350 0.88 +0.2
174,154 + GFF3350 0.88 -0.8
174,155 - GFF3350 0.88 -0.9
174,155 - GFF3350 0.88 -0.4
174,155 - GFF3350 0.88 -0.3
174,317 - -0.1
174,336 - +0.8
174,411 + -0.3
174,412 - -0.5
174,412 - -0.3
174,585 + GFF3351 0.34 -0.5
174,586 - GFF3351 0.35 -0.5
174,586 - GFF3351 0.35 +0.0
174,586 - GFF3351 0.35 +0.1
174,780 + GFF3351 0.69 -0.8

Or see this region's nucleotide sequence