Strain Fitness in Shewanella loihica PV-4 around Shew_0007

Experiment: D-Maltose (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_0005 and Shew_0006 are separated by 33 nucleotidesShew_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_0005: Shew_0005 - hypothetical protein (RefSeq), at 6,322 to 7,041 _0005 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) 7 8 9Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 6.795 kb on + strand, within Shew_0005at 6.795 kb on + strand, within Shew_0005at 6.803 kb on - strand, within Shew_0005at 6.823 kb on + strand, within Shew_0005at 6.925 kb on - strand, within Shew_0005at 6.950 kb on - strand, within Shew_0005at 6.998 kb on + strandat 7.127 kb on - strandat 7.154 kb on - strand, within Shew_0006at 7.219 kb on - strand, within Shew_0006at 7.326 kb on + strand, within Shew_0006at 7.326 kb on + strand, within Shew_0006at 7.326 kb on + strand, within Shew_0006at 7.334 kb on - strand, within Shew_0006at 7.511 kb on + strand, within Shew_0006at 7.526 kb on + strand, within Shew_0006at 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 D-Maltose (C)
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6,795 + Shew_0005 0.66 -3.3
6,795 + Shew_0005 0.66 -0.0
6,803 - Shew_0005 0.67 +0.1
6,823 + Shew_0005 0.70 +0.3
6,925 - Shew_0005 0.84 +0.8
6,950 - Shew_0005 0.87 +0.2
6,998 + +0.1
7,127 - +0.3
7,154 - Shew_0006 0.11 +0.6
7,219 - Shew_0006 0.20 +0.2
7,326 + Shew_0006 0.34 -1.0
7,326 + Shew_0006 0.34 -3.6
7,326 + Shew_0006 0.34 +0.3
7,334 - Shew_0006 0.36 +1.8
7,511 + Shew_0006 0.60 +0.8
7,526 + Shew_0006 0.62 -0.4
7,799 - +1.4
7,902 + Shew_0007 0.12 +0.6
7,902 + Shew_0007 0.12 -1.0
7,902 + Shew_0007 0.12 -1.7
7,902 + Shew_0007 0.12 +0.5
7,902 + Shew_0007 0.12 +0.7
7,910 - Shew_0007 0.13 +0.2
7,910 - Shew_0007 0.13 +0.4
7,910 - Shew_0007 0.13 -0.1
7,910 - Shew_0007 0.13 -0.9
7,910 - Shew_0007 0.13 +0.1
7,910 - Shew_0007 0.13 -3.3
8,141 + Shew_0007 0.37 +0.0
8,230 - Shew_0007 0.47 -0.5
8,371 - Shew_0007 0.62 -0.5
8,415 - Shew_0007 0.67 -0.5
8,530 - Shew_0007 0.79 +0.1
8,615 - Shew_0007 0.88 +0.1
8,741 + -0.2
8,773 - +0.2
8,783 - -0.6
8,950 - Shew_0008 0.33 +0.1
9,065 - Shew_0008 0.50 -0.2
9,067 + Shew_0008 0.50 -0.2
9,106 + Shew_0008 0.56 +0.7
9,179 + Shew_0008 0.67 +0.0
9,179 + Shew_0008 0.67 -0.9
9,179 + Shew_0008 0.67 -0.1
9,187 - Shew_0008 0.68 +0.2
9,285 + Shew_0008 0.82 -0.4
9,292 - Shew_0008 0.83 -0.3
9,299 + Shew_0008 0.84 +0.6
9,299 + Shew_0008 0.84 +1.1
9,299 + Shew_0008 0.84 -3.0
9,299 + Shew_0008 0.84 +0.6
9,299 + Shew_0008 0.84 -1.4
9,299 + Shew_0008 0.84 +0.0
9,299 + Shew_0008 0.84 -0.7
9,299 + Shew_0008 0.84 -0.5
9,299 + Shew_0008 0.84 -0.3
9,299 + Shew_0008 0.84 -0.1
9,299 + Shew_0008 0.84 -0.3
9,299 + Shew_0008 0.84 +0.3
9,299 + Shew_0008 0.84 +0.2
9,299 + Shew_0008 0.84 +0.4
9,299 + Shew_0008 0.84 -0.0
9,307 - Shew_0008 0.85 -0.1
9,307 - Shew_0008 0.85 -0.1
9,307 - Shew_0008 0.85 -1.3
9,307 - Shew_0008 0.85 -1.7
9,307 - Shew_0008 0.85 +0.3
9,307 - Shew_0008 0.85 +0.8
9,307 - Shew_0008 0.85 +0.3
9,307 - Shew_0008 0.85 -0.1
9,307 - Shew_0008 0.85 +0.5

Or see this region's nucleotide sequence