Strain Fitness in Variovorax sp. SCN45 around GFF1860

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

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntGFF1858 and GFF1859 overlap by 4 nucleotidesGFF1859 and GFF1860 are separated by 12 nucleotidesGFF1860 and GFF1861 are separated by 172 nucleotides GFF1858 - ABC transporter, ATP-binding protein (cluster 3, basic aa/glutamine/opines), at 533,115 to 533,879 GFF1858 GFF1859 - ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines), at 533,876 to 534,547 GFF1859 GFF1860 - ABC transporter, substrate-binding protein (cluster 3, basic aa/glutamine/opines), at 534,560 to 535,327 GFF1860 GFF1861 - Transcriptional regulator, IclR family, at 535,500 to 536,324 GFF1861 Position (kb) 534 535 536Strain fitness (log2 ratio) -2 -1 0 1 2at 533.722 kb on + strand, within GFF1858at 533.928 kb on + strandat 533.928 kb on + strandat 533.928 kb on + strandat 533.928 kb on + strandat 533.929 kb on - strandat 533.929 kb on - strandat 533.929 kb on - strandat 533.955 kb on + strand, within GFF1859at 533.955 kb on + strand, within GFF1859at 533.955 kb on + strand, within GFF1859at 533.956 kb on - strand, within GFF1859at 533.956 kb on - strand, within GFF1859at 533.956 kb on - strand, within GFF1859at 533.956 kb on - strand, within GFF1859at 533.976 kb on + strand, within GFF1859at 533.976 kb on + strand, within GFF1859at 533.977 kb on - strand, within GFF1859at 534.097 kb on - strand, within GFF1859at 534.097 kb on - strand, within GFF1859at 534.132 kb on - strand, within GFF1859at 534.132 kb on - strand, within GFF1859at 534.318 kb on + strand, within GFF1859at 534.318 kb on + strand, within GFF1859at 534.318 kb on + strand, within GFF1859at 534.318 kb on + strand, within GFF1859at 534.318 kb on + strand, within GFF1859at 534.318 kb on + strand, within GFF1859at 534.319 kb on - strand, within GFF1859at 534.319 kb on - strand, within GFF1859at 534.319 kb on - strand, within GFF1859at 534.319 kb on - strand, within GFF1859at 534.319 kb on - strand, within GFF1859at 534.319 kb on - strand, within GFF1859at 534.324 kb on + strand, within GFF1859at 534.324 kb on + strand, within GFF1859at 534.324 kb on + strand, within GFF1859at 534.324 kb on + strand, within GFF1859at 534.324 kb on + strand, within GFF1859at 534.324 kb on + strand, within GFF1859at 534.324 kb on + strand, within GFF1859at 534.324 kb on + strand, within GFF1859at 534.325 kb on - strand, within GFF1859at 534.325 kb on - strand, within GFF1859at 534.325 kb on - strand, within GFF1859at 534.325 kb on - strand, within GFF1859at 534.325 kb on - strand, within GFF1859at 534.325 kb on - strand, within GFF1859at 534.325 kb on - strand, within GFF1859at 534.699 kb on + strand, within GFF1860at 534.699 kb on + strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.700 kb on - strand, within GFF1860at 534.747 kb on + strand, within GFF1860at 534.747 kb on + strand, within GFF1860at 534.748 kb on - strand, within GFF1860at 534.748 kb on - strand, within GFF1860at 534.828 kb on + strand, within GFF1860at 534.828 kb on + strand, within GFF1860at 534.828 kb on + strand, within GFF1860at 534.828 kb on + strand, within GFF1860at 534.828 kb on + strand, within GFF1860at 534.829 kb on - strand, within GFF1860at 534.829 kb on - strand, within GFF1860at 534.933 kb on + strand, within GFF1860at 534.933 kb on + strand, within GFF1860at 534.933 kb on + strand, within GFF1860at 534.933 kb on + strand, within GFF1860at 534.933 kb on + strand, within GFF1860at 534.934 kb on - strand, within GFF1860at 534.975 kb on + strand, within GFF1860at 534.975 kb on + strand, within GFF1860at 534.976 kb on - strand, within GFF1860at 534.981 kb on + strand, within GFF1860at 534.982 kb on - strand, within GFF1860at 534.982 kb on - strand, within GFF1860at 535.230 kb on + strand, within GFF1860at 535.230 kb on + strand, within GFF1860at 535.230 kb on + strand, within GFF1860at 535.231 kb on - strand, within GFF1860at 535.231 kb on - strand, within GFF1860at 535.231 kb on - strand, within GFF1860at 535.507 kb on + strandat 535.507 kb on + strandat 535.508 kb on - strandat 535.508 kb on - strandat 535.510 kb on - strandat 535.716 kb on + strand, within GFF1861at 535.747 kb on - strand, within GFF1861at 535.785 kb on + strand, within GFF1861at 535.785 kb on + strand, within GFF1861at 535.786 kb on - strand, within GFF1861at 535.786 kb on - strand, within GFF1861at 535.786 kb on - strand, within GFF1861at 535.896 kb on + strand, within GFF1861at 535.896 kb on + strand, within GFF1861at 535.896 kb on + strand, within GFF1861at 535.896 kb on + strand, within GFF1861at 535.897 kb on - strand, within GFF1861at 535.897 kb on - strand, within GFF1861at 535.897 kb on - strand, within GFF1861at 535.897 kb on - strand, within GFF1861at 535.897 kb on - strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.965 kb on + strand, within GFF1861at 535.966 kb on - strand, within GFF1861at 535.966 kb on - strand, within GFF1861at 535.966 kb on - strand, within GFF1861at 535.966 kb on - strand, within GFF1861at 535.966 kb on - strand, within GFF1861at 535.966 kb on - strand, within GFF1861at 535.966 kb on - strand, within GFF1861at 535.966 kb on - strand, within GFF1861

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL and thiamine HCl 10 mg/mL
remove
533,722 + GFF1858 0.79 +0.5
533,928 + +0.2
533,928 + -0.5
533,928 + -0.7
533,928 + -0.9
533,929 - +1.1
533,929 - +1.7
533,929 - +0.5
533,955 + GFF1859 0.12 -2.0
533,955 + GFF1859 0.12 -0.3
533,955 + GFF1859 0.12 +0.4
533,956 - GFF1859 0.12 -0.0
533,956 - GFF1859 0.12 -0.1
533,956 - GFF1859 0.12 -1.3
533,956 - GFF1859 0.12 -0.5
533,976 + GFF1859 0.15 -0.3
533,976 + GFF1859 0.15 -0.3
533,977 - GFF1859 0.15 +0.1
534,097 - GFF1859 0.33 -0.2
534,097 - GFF1859 0.33 -0.1
534,132 - GFF1859 0.38 -1.3
534,132 - GFF1859 0.38 -1.6
534,318 + GFF1859 0.66 +0.7
534,318 + GFF1859 0.66 -0.0
534,318 + GFF1859 0.66 +0.1
534,318 + GFF1859 0.66 -0.3
534,318 + GFF1859 0.66 -1.5
534,318 + GFF1859 0.66 +0.1
534,319 - GFF1859 0.66 -0.1
534,319 - GFF1859 0.66 +0.4
534,319 - GFF1859 0.66 -0.2
534,319 - GFF1859 0.66 +0.1
534,319 - GFF1859 0.66 +0.7
534,319 - GFF1859 0.66 -0.0
534,324 + GFF1859 0.67 -0.0
534,324 + GFF1859 0.67 +1.0
534,324 + GFF1859 0.67 -1.1
534,324 + GFF1859 0.67 -0.3
534,324 + GFF1859 0.67 +0.1
534,324 + GFF1859 0.67 -0.9
534,324 + GFF1859 0.67 +1.0
534,324 + GFF1859 0.67 -0.9
534,325 - GFF1859 0.67 -0.0
534,325 - GFF1859 0.67 -0.3
534,325 - GFF1859 0.67 -0.0
534,325 - GFF1859 0.67 -0.1
534,325 - GFF1859 0.67 -0.8
534,325 - GFF1859 0.67 +0.5
534,325 - GFF1859 0.67 -1.3
534,699 + GFF1860 0.18 +0.0
534,699 + GFF1860 0.18 -0.9
534,700 - GFF1860 0.18 -0.5
534,700 - GFF1860 0.18 -1.5
534,700 - GFF1860 0.18 -0.6
534,700 - GFF1860 0.18 -0.5
534,700 - GFF1860 0.18 -1.4
534,700 - GFF1860 0.18 -0.0
534,700 - GFF1860 0.18 +1.1
534,700 - GFF1860 0.18 -0.3
534,700 - GFF1860 0.18 -1.6
534,747 + GFF1860 0.24 +0.1
534,747 + GFF1860 0.24 -0.3
534,748 - GFF1860 0.24 +0.5
534,748 - GFF1860 0.24 +0.4
534,828 + GFF1860 0.35 -0.8
534,828 + GFF1860 0.35 -1.2
534,828 + GFF1860 0.35 -1.9
534,828 + GFF1860 0.35 -0.6
534,828 + GFF1860 0.35 -0.3
534,829 - GFF1860 0.35 +0.4
534,829 - GFF1860 0.35 -0.0
534,933 + GFF1860 0.49 +0.1
534,933 + GFF1860 0.49 -0.2
534,933 + GFF1860 0.49 -0.3
534,933 + GFF1860 0.49 -2.1
534,933 + GFF1860 0.49 -0.2
534,934 - GFF1860 0.49 -0.9
534,975 + GFF1860 0.54 -1.5
534,975 + GFF1860 0.54 +0.7
534,976 - GFF1860 0.54 -0.6
534,981 + GFF1860 0.55 -0.9
534,982 - GFF1860 0.55 -0.9
534,982 - GFF1860 0.55 -0.8
535,230 + GFF1860 0.87 -0.3
535,230 + GFF1860 0.87 +1.1
535,230 + GFF1860 0.87 -0.5
535,231 - GFF1860 0.87 -0.1
535,231 - GFF1860 0.87 -0.4
535,231 - GFF1860 0.87 -0.9
535,507 + +0.5
535,507 + +1.3
535,508 - +0.4
535,508 - +1.1
535,510 - +1.1
535,716 + GFF1861 0.26 +0.8
535,747 - GFF1861 0.30 -0.2
535,785 + GFF1861 0.35 +0.4
535,785 + GFF1861 0.35 +0.0
535,786 - GFF1861 0.35 +0.8
535,786 - GFF1861 0.35 +0.7
535,786 - GFF1861 0.35 +0.7
535,896 + GFF1861 0.48 +1.2
535,896 + GFF1861 0.48 +0.4
535,896 + GFF1861 0.48 +0.3
535,896 + GFF1861 0.48 +0.2
535,897 - GFF1861 0.48 +0.4
535,897 - GFF1861 0.48 +0.1
535,897 - GFF1861 0.48 +2.3
535,897 - GFF1861 0.48 -0.8
535,897 - GFF1861 0.48 +0.3
535,965 + GFF1861 0.56 +0.4
535,965 + GFF1861 0.56 -0.2
535,965 + GFF1861 0.56 +0.5
535,965 + GFF1861 0.56 -1.1
535,965 + GFF1861 0.56 +0.4
535,965 + GFF1861 0.56 -0.8
535,965 + GFF1861 0.56 +1.9
535,965 + GFF1861 0.56 +1.9
535,965 + GFF1861 0.56 +0.3
535,966 - GFF1861 0.56 +0.4
535,966 - GFF1861 0.56 +0.4
535,966 - GFF1861 0.56 +0.2
535,966 - GFF1861 0.56 -0.4
535,966 - GFF1861 0.56 +0.5
535,966 - GFF1861 0.56 +0.1
535,966 - GFF1861 0.56 +0.8
535,966 - GFF1861 0.56 +0.7

Or see this region's nucleotide sequence