Strain Fitness in Shewanella loihica PV-4 around Shew_0008

Experiment: acetate (C)

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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 ntShew_0006 and Shew_0007 overlap by 11 nucleotidesShew_0007 and Shew_0008 overlap by 4 nucleotidesShew_0008 and glyS are separated by 98 nucleotides Shew_0006: Shew_0006 - LamB/YcsF family protein (RefSeq), at 7,075 to 7,803 _0006 Shew_0007: Shew_0007 - urea amidolyase related protein (RefSeq), at 7,793 to 8,725 _0007 Shew_0008: Shew_0008 - allophanate hydrolase subunit 1 (RefSeq), at 8,722 to 9,408 _0008 Shew_0009: glyS - glycyl-tRNA synthetase subunit beta (RefSeq), at 9,507 to 11,576 glyS Position (kb) 8 9 10Strain fitness (log2 ratio) -2 -1 0 1 2at 7.799 kb on - strandat 7.902 kb on + strand, within Shew_0007at 7.902 kb on + strand, within Shew_0007at 7.902 kb on + strand, within Shew_0007at 7.902 kb on + strand, within Shew_0007at 7.902 kb on + strand, within Shew_0007at 7.910 kb on - strand, within Shew_0007at 7.910 kb on - strand, within Shew_0007at 7.910 kb on - strand, within Shew_0007at 7.910 kb on - strand, within Shew_0007at 7.910 kb on - strand, within Shew_0007at 7.910 kb on - strand, within Shew_0007at 8.141 kb on + strand, within Shew_0007at 8.230 kb on - strand, within Shew_0007at 8.371 kb on - strand, within Shew_0007at 8.415 kb on - strand, within Shew_0007at 8.530 kb on - strand, within Shew_0007at 8.615 kb on - strand, within Shew_0007at 8.741 kb on + strandat 8.773 kb on - strandat 8.783 kb on - strandat 8.950 kb on - strand, within Shew_0008at 9.065 kb on - strand, within Shew_0008at 9.067 kb on + strand, within Shew_0008at 9.106 kb on + strand, within Shew_0008at 9.179 kb on + strand, within Shew_0008at 9.179 kb on + strand, within Shew_0008at 9.179 kb on + strand, within Shew_0008at 9.187 kb on - strand, within Shew_0008at 9.285 kb on + strand, within Shew_0008at 9.292 kb on - strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.299 kb on + strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008at 9.307 kb on - strand, within Shew_0008

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Per-strain Table

Position Strand Gene LocusTag Fraction acetate (C)
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7,799 - +1.2
7,902 + Shew_0007 0.12 +0.8
7,902 + Shew_0007 0.12 +0.7
7,902 + Shew_0007 0.12 +0.7
7,902 + Shew_0007 0.12 +0.1
7,902 + Shew_0007 0.12 +1.5
7,910 - Shew_0007 0.13 +0.2
7,910 - Shew_0007 0.13 +0.3
7,910 - Shew_0007 0.13 +0.0
7,910 - Shew_0007 0.13 -0.5
7,910 - Shew_0007 0.13 +0.3
7,910 - Shew_0007 0.13 +0.5
8,141 + Shew_0007 0.37 -0.8
8,230 - Shew_0007 0.47 +0.2
8,371 - Shew_0007 0.62 +0.2
8,415 - Shew_0007 0.67 +0.3
8,530 - Shew_0007 0.79 -0.5
8,615 - Shew_0007 0.88 -0.2
8,741 + -0.2
8,773 - -0.0
8,783 - -0.3
8,950 - Shew_0008 0.33 +0.5
9,065 - Shew_0008 0.50 -0.4
9,067 + Shew_0008 0.50 +0.6
9,106 + Shew_0008 0.56 +1.2
9,179 + Shew_0008 0.67 -1.3
9,179 + Shew_0008 0.67 -0.7
9,179 + Shew_0008 0.67 -0.3
9,187 - Shew_0008 0.68 -0.4
9,285 + Shew_0008 0.82 +0.1
9,292 - Shew_0008 0.83 -0.2
9,299 + Shew_0008 0.84 +1.3
9,299 + Shew_0008 0.84 +1.2
9,299 + Shew_0008 0.84 +0.4
9,299 + Shew_0008 0.84 +1.9
9,299 + Shew_0008 0.84 -0.4
9,299 + Shew_0008 0.84 +0.1
9,299 + Shew_0008 0.84 +0.1
9,299 + Shew_0008 0.84 -0.1
9,299 + Shew_0008 0.84 +0.9
9,299 + Shew_0008 0.84 -2.0
9,299 + Shew_0008 0.84 +0.7
9,299 + Shew_0008 0.84 +0.3
9,299 + Shew_0008 0.84 +0.3
9,299 + Shew_0008 0.84 -0.5
9,299 + Shew_0008 0.84 +0.2
9,307 - Shew_0008 0.85 -0.1
9,307 - Shew_0008 0.85 -0.4
9,307 - Shew_0008 0.85 +0.5
9,307 - Shew_0008 0.85 -1.3
9,307 - Shew_0008 0.85 -0.6
9,307 - Shew_0008 0.85 +1.6
9,307 - Shew_0008 0.85 +0.7
9,307 - Shew_0008 0.85 +0.3
9,307 - Shew_0008 0.85 +0.1

Or see this region's nucleotide sequence