Strain Fitness in Variovorax sp. SCN45 around GFF1988

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 ntGFF1986 and GFF1987 are separated by 68 nucleotidesGFF1987 and GFF1988 overlap by 4 nucleotidesGFF1988 and GFF1989 are separated by 29 nucleotides GFF1986 - Oxidoreductase, short-chain dehydrogenase/reductase family, at 27,776 to 28,546 GFF1986 GFF1987 - Pseudouridine synthase (EC 4.2.1.70), PA2043 type, at 28,615 to 29,535 GFF1987 GFF1988 - Serine/threonine protein kinase, at 29,532 to 30,842 GFF1988 GFF1989 - MBL-fold metallo-hydrolase superfamily, at 30,872 to 31,942 GFF1989 Position (kb) 29 30 31Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 28.590 kb on + strandat 28.590 kb on + strandat 28.757 kb on + strand, within GFF1987at 28.758 kb on - strand, within GFF1987at 28.758 kb on - strand, within GFF1987at 28.958 kb on + strand, within GFF1987at 28.958 kb on + strand, within GFF1987at 28.958 kb on + strand, within GFF1987at 28.958 kb on + strand, within GFF1987at 28.959 kb on - strand, within GFF1987at 29.009 kb on + strand, within GFF1987at 29.009 kb on + strand, within GFF1987at 29.010 kb on - strand, within GFF1987at 29.010 kb on - strand, within GFF1987at 29.010 kb on - strand, within GFF1987at 29.010 kb on - strand, within GFF1987at 29.048 kb on + strand, within GFF1987at 29.180 kb on + strand, within GFF1987at 29.180 kb on + strand, within GFF1987at 29.180 kb on + strand, within GFF1987at 29.180 kb on + strand, within GFF1987at 29.180 kb on + strand, within GFF1987at 29.181 kb on - strand, within GFF1987at 29.181 kb on - strand, within GFF1987at 29.181 kb on - strand, within GFF1987at 29.181 kb on - strand, within GFF1987at 29.181 kb on - strand, within GFF1987at 29.181 kb on - strand, within GFF1987at 29.297 kb on + strand, within GFF1987at 29.297 kb on + strand, within GFF1987at 29.300 kb on + strand, within GFF1987at 29.300 kb on + strand, within GFF1987at 29.300 kb on + strand, within GFF1987at 29.300 kb on + strand, within GFF1987at 29.300 kb on + strand, within GFF1987at 29.300 kb on + strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.301 kb on - strand, within GFF1987at 29.302 kb on + strand, within GFF1987at 29.303 kb on + strand, within GFF1987at 29.303 kb on + strand, within GFF1987at 29.303 kb on + strand, within GFF1987at 29.303 kb on + strand, within GFF1987at 29.303 kb on + strand, within GFF1987at 29.303 kb on + strand, within GFF1987at 29.304 kb on - strand, within GFF1987at 29.304 kb on - strand, within GFF1987at 29.304 kb on - strand, within GFF1987at 29.304 kb on - strand, within GFF1987at 29.304 kb on - strand, within GFF1987at 29.304 kb on - strand, within GFF1987at 29.325 kb on - strand, within GFF1987at 29.553 kb on + strandat 29.553 kb on + strandat 29.554 kb on - strandat 29.554 kb on - strandat 29.554 kb on - strandat 29.554 kb on - strandat 29.812 kb on + strand, within GFF1988at 29.812 kb on + strand, within GFF1988at 29.812 kb on + strand, within GFF1988at 29.813 kb on - strand, within GFF1988at 29.813 kb on - strand, within GFF1988at 29.813 kb on - strand, within GFF1988at 29.813 kb on - strand, within GFF1988at 29.920 kb on + strand, within GFF1988at 29.921 kb on - strand, within GFF1988at 29.921 kb on - strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.599 kb on + strand, within GFF1988at 30.600 kb on - strand, within GFF1988at 30.600 kb on - strand, within GFF1988at 30.600 kb on - strand, within GFF1988at 30.853 kb on + strandat 30.854 kb on - strandat 30.903 kb on + strandat 30.904 kb on - strandat 30.904 kb on - strandat 31.320 kb on + strand, within GFF1989at 31.320 kb on + strand, within GFF1989at 31.394 kb on - strand, within GFF1989at 31.394 kb on - strand, within GFF1989at 31.449 kb on + strand, within GFF1989at 31.452 kb on + strand, within GFF1989at 31.452 kb on + strand, within GFF1989at 31.452 kb on + strand, within GFF1989at 31.452 kb on + strand, within GFF1989at 31.452 kb on + strand, within GFF1989at 31.452 kb on + strand, within GFF1989at 31.452 kb on + strand, within GFF1989at 31.453 kb on - strand, within GFF1989at 31.453 kb on - strand, within GFF1989at 31.453 kb on - strand, within GFF1989at 31.453 kb on - strand, within GFF1989at 31.453 kb on - strand, within GFF1989at 31.453 kb on - strand, within GFF1989at 31.581 kb on + strand, within GFF1989at 31.581 kb on + strand, within GFF1989at 31.581 kb on + strand, within GFF1989at 31.582 kb on - strand, within GFF1989at 31.582 kb on - strand, within GFF1989at 31.582 kb on - strand, within GFF1989at 31.582 kb on - strand, within GFF1989at 31.582 kb on - strand, within GFF1989at 31.582 kb on - strand, within GFF1989

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Per-strain Table

Position Strand Gene LocusTag Fraction phage_bap4
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28,590 + -0.4
28,590 + +0.4
28,757 + GFF1987 0.15 +0.2
28,758 - GFF1987 0.16 +0.7
28,758 - GFF1987 0.16 -0.5
28,958 + GFF1987 0.37 +0.1
28,958 + GFF1987 0.37 -0.3
28,958 + GFF1987 0.37 -0.8
28,958 + GFF1987 0.37 +0.3
28,959 - GFF1987 0.37 -0.3
29,009 + GFF1987 0.43 +1.9
29,009 + GFF1987 0.43 -0.3
29,010 - GFF1987 0.43 -0.6
29,010 - GFF1987 0.43 -0.1
29,010 - GFF1987 0.43 +0.0
29,010 - GFF1987 0.43 -0.6
29,048 + GFF1987 0.47 -0.5
29,180 + GFF1987 0.61 -0.4
29,180 + GFF1987 0.61 -0.8
29,180 + GFF1987 0.61 +0.0
29,180 + GFF1987 0.61 +0.8
29,180 + GFF1987 0.61 -1.1
29,181 - GFF1987 0.61 -0.2
29,181 - GFF1987 0.61 +0.0
29,181 - GFF1987 0.61 -1.1
29,181 - GFF1987 0.61 -0.6
29,181 - GFF1987 0.61 +0.4
29,181 - GFF1987 0.61 -1.2
29,297 + GFF1987 0.74 -1.1
29,297 + GFF1987 0.74 +0.3
29,300 + GFF1987 0.74 -0.5
29,300 + GFF1987 0.74 -0.5
29,300 + GFF1987 0.74 +0.2
29,300 + GFF1987 0.74 +1.0
29,300 + GFF1987 0.74 -1.0
29,300 + GFF1987 0.74 -0.0
29,301 - GFF1987 0.74 +0.9
29,301 - GFF1987 0.74 -0.5
29,301 - GFF1987 0.74 -0.2
29,301 - GFF1987 0.74 -2.2
29,301 - GFF1987 0.74 -0.6
29,301 - GFF1987 0.74 -0.4
29,301 - GFF1987 0.74 +1.1
29,301 - GFF1987 0.74 +0.5
29,301 - GFF1987 0.74 -0.2
29,301 - GFF1987 0.74 +0.2
29,301 - GFF1987 0.74 -1.1
29,302 + GFF1987 0.75 -1.2
29,303 + GFF1987 0.75 +0.8
29,303 + GFF1987 0.75 -0.3
29,303 + GFF1987 0.75 +0.3
29,303 + GFF1987 0.75 -0.4
29,303 + GFF1987 0.75 -0.2
29,303 + GFF1987 0.75 -0.1
29,304 - GFF1987 0.75 -0.8
29,304 - GFF1987 0.75 -0.3
29,304 - GFF1987 0.75 +0.3
29,304 - GFF1987 0.75 -0.1
29,304 - GFF1987 0.75 -0.4
29,304 - GFF1987 0.75 +4.0
29,325 - GFF1987 0.77 -0.8
29,553 + +0.6
29,553 + +0.1
29,554 - -1.1
29,554 - -1.4
29,554 - +0.3
29,554 - +0.1
29,812 + GFF1988 0.21 +1.0
29,812 + GFF1988 0.21 -0.4
29,812 + GFF1988 0.21 -0.4
29,813 - GFF1988 0.21 +0.1
29,813 - GFF1988 0.21 -0.2
29,813 - GFF1988 0.21 +0.3
29,813 - GFF1988 0.21 +1.6
29,920 + GFF1988 0.30 -0.8
29,921 - GFF1988 0.30 -0.5
29,921 - GFF1988 0.30 -0.9
30,599 + GFF1988 0.81 -1.0
30,599 + GFF1988 0.81 -0.8
30,599 + GFF1988 0.81 +0.3
30,599 + GFF1988 0.81 +0.4
30,599 + GFF1988 0.81 -0.7
30,599 + GFF1988 0.81 +0.5
30,599 + GFF1988 0.81 +0.2
30,599 + GFF1988 0.81 -1.5
30,599 + GFF1988 0.81 -0.1
30,600 - GFF1988 0.81 +0.2
30,600 - GFF1988 0.81 +1.3
30,600 - GFF1988 0.81 +0.3
30,853 + -0.1
30,854 - -0.3
30,903 + +0.8
30,904 - +0.3
30,904 - -0.4
31,320 + GFF1989 0.42 -1.6
31,320 + GFF1989 0.42 -0.8
31,394 - GFF1989 0.49 +0.1
31,394 - GFF1989 0.49 +1.5
31,449 + GFF1989 0.54 +0.2
31,452 + GFF1989 0.54 +0.7
31,452 + GFF1989 0.54 +0.1
31,452 + GFF1989 0.54 -0.6
31,452 + GFF1989 0.54 +0.7
31,452 + GFF1989 0.54 +1.0
31,452 + GFF1989 0.54 +0.0
31,452 + GFF1989 0.54 +0.1
31,453 - GFF1989 0.54 +1.7
31,453 - GFF1989 0.54 +0.9
31,453 - GFF1989 0.54 -0.1
31,453 - GFF1989 0.54 -0.8
31,453 - GFF1989 0.54 -1.1
31,453 - GFF1989 0.54 -0.6
31,581 + GFF1989 0.66 +0.6
31,581 + GFF1989 0.66 -0.2
31,581 + GFF1989 0.66 -0.8
31,582 - GFF1989 0.66 +0.3
31,582 - GFF1989 0.66 -0.1
31,582 - GFF1989 0.66 -0.6
31,582 - GFF1989 0.66 -0.3
31,582 - GFF1989 0.66 -0.1
31,582 - GFF1989 0.66 -0.9

Or see this region's nucleotide sequence