Strain Fitness in Shewanella amazonensis SB2B around Sama_R0025

Experiment: a-Ketoglutaric

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 ntSama_R0022 and Sama_R0023 are separated by 70 nucleotidesSama_R0023 and Sama_R0024 are separated by 119 nucleotidesSama_R0024 and Sama_R0025 are separated by 276 nucleotidesSama_R0025 and Sama_R0026 are separated by 66 nucleotidesSama_R0026 and Sama_R0027 are separated by 66 nucleotidesSama_R0027 and Sama_R0028 are separated by 45 nucleotidesSama_R0028 and Sama_R0029 are separated by 42 nucleotidesSama_R0029 and Sama_0363 are separated by 129 nucleotides Sama_R0022: Sama_R0022 - 16S ribosomal RNA (RefSeq), at 436,076 to 437,612 _R0022 Sama_R0023: Sama_R0023 - tRNA-Ile (RefSeq), at 437,683 to 437,759 _R0023 Sama_R0024: Sama_R0024 - tRNA-Ala (RefSeq), at 437,879 to 437,954 _R0024 Sama_R0025: Sama_R0025 - 23S ribosomal RNA (RefSeq), at 438,231 to 441,144 _R0025 Sama_R0026: Sama_R0026 - tRNA-Val (RefSeq), at 441,211 to 441,286 _R0026 Sama_R0027: Sama_R0027 - 5S ribosomal RNA (RefSeq), at 441,353 to 441,468 _R0027 Sama_R0028: Sama_R0028 - tRNA-Thr (RefSeq), at 441,514 to 441,589 _R0028 Sama_R0029: Sama_R0029 - 5S ribosomal RNA (RefSeq), at 441,632 to 441,746 _R0029 Sama_0363: Sama_0363 - mutator MutT protein (RefSeq), at 441,876 to 442,271 _0363 Position (kb) 438 439 440 441 442Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 441.287 kb on + strandat 441.287 kb on + strandat 441.287 kb on + strandat 441.287 kb on + strandat 441.287 kb on + strandat 441.287 kb on + strandat 441.287 kb on + strandat 441.287 kb on + strandat 441.453 kb on + strand, within Sama_R0027at 441.453 kb on + strand, within Sama_R0027at 441.472 kb on + strandat 441.549 kb on + strand, within Sama_R0028at 441.549 kb on + strand, within Sama_R0028at 441.591 kb on + strandat 441.591 kb on + strandat 441.608 kb on + strandat 441.608 kb on + strandat 441.679 kb on + strand, within Sama_R0029at 441.679 kb on + strand, within Sama_R0029at 441.704 kb on + strand, within Sama_R0029at 441.704 kb on + strand, within Sama_R0029at 441.704 kb on + strand, within Sama_R0029at 441.730 kb on + strand, within Sama_R0029at 441.730 kb on + strand, within Sama_R0029at 441.788 kb on + strandat 441.819 kb on + strandat 441.831 kb on - strandat 441.846 kb on + strandat 441.846 kb on + strandat 441.881 kb on + strandat 441.881 kb on + strandat 441.882 kb on - strandat 441.882 kb on - strandat 441.882 kb on - strandat 441.899 kb on + strandat 441.899 kb on + strandat 441.935 kb on - strand, within Sama_0363at 441.935 kb on - strand, within Sama_0363at 442.022 kb on + strand, within Sama_0363at 442.023 kb on - strand, within Sama_0363at 442.023 kb on - strand, within Sama_0363at 442.032 kb on + strand, within Sama_0363at 442.032 kb on + strand, within Sama_0363at 442.032 kb on + strand, within Sama_0363at 442.033 kb on - strand, within Sama_0363at 442.033 kb on - strand, within Sama_0363at 442.033 kb on - strand, within Sama_0363at 442.049 kb on - strand, within Sama_0363at 442.067 kb on + strand, within Sama_0363at 442.067 kb on + strand, within Sama_0363at 442.068 kb on - strand, within Sama_0363at 442.068 kb on - strand, within Sama_0363at 442.068 kb on - strand, within Sama_0363at 442.068 kb on - strand, within Sama_0363at 442.068 kb on - strand, within Sama_0363at 442.069 kb on + strand, within Sama_0363at 442.069 kb on + strand, within Sama_0363at 442.069 kb on + strand, within Sama_0363at 442.069 kb on + strand, within Sama_0363at 442.069 kb on + strand, within Sama_0363at 442.069 kb on + strand, within Sama_0363at 442.069 kb on + strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.070 kb on - strand, within Sama_0363at 442.111 kb on - strand, within Sama_0363

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction a-Ketoglutaric
remove
441,287 + -1.0
441,287 + +1.4
441,287 + +1.9
441,287 + +1.1
441,287 + +1.1
441,287 + -2.5
441,287 + +0.7
441,287 + +0.7
441,453 + Sama_R0027 0.86 +2.1
441,453 + Sama_R0027 0.86 +1.8
441,472 + +0.9
441,549 + Sama_R0028 0.46 +0.8
441,549 + Sama_R0028 0.46 +1.0
441,591 + -1.9
441,591 + -1.2
441,608 + +1.7
441,608 + -0.6
441,679 + Sama_R0029 0.41 -1.4
441,679 + Sama_R0029 0.41 -2.8
441,704 + Sama_R0029 0.63 +0.1
441,704 + Sama_R0029 0.63 -0.5
441,704 + Sama_R0029 0.63 +0.6
441,730 + Sama_R0029 0.85 -0.9
441,730 + Sama_R0029 0.85 -0.2
441,788 + +1.0
441,819 + -2.8
441,831 - -3.5
441,846 + +0.1
441,846 + -1.3
441,881 + -0.6
441,881 + +0.1
441,882 - -2.4
441,882 - +0.7
441,882 - +0.0
441,899 + +0.3
441,899 + -2.4
441,935 - Sama_0363 0.15 +0.2
441,935 - Sama_0363 0.15 +0.7
442,022 + Sama_0363 0.37 +1.3
442,023 - Sama_0363 0.37 -2.4
442,023 - Sama_0363 0.37 +0.8
442,032 + Sama_0363 0.39 -2.4
442,032 + Sama_0363 0.39 +0.4
442,032 + Sama_0363 0.39 +0.2
442,033 - Sama_0363 0.40 -1.5
442,033 - Sama_0363 0.40 -2.3
442,033 - Sama_0363 0.40 -0.3
442,049 - Sama_0363 0.44 -0.3
442,067 + Sama_0363 0.48 -0.4
442,067 + Sama_0363 0.48 +0.9
442,068 - Sama_0363 0.48 +0.3
442,068 - Sama_0363 0.48 -0.3
442,068 - Sama_0363 0.48 +0.8
442,068 - Sama_0363 0.48 -0.9
442,068 - Sama_0363 0.48 -2.8
442,069 + Sama_0363 0.49 +0.4
442,069 + Sama_0363 0.49 -2.5
442,069 + Sama_0363 0.49 +0.7
442,069 + Sama_0363 0.49 -4.1
442,069 + Sama_0363 0.49 -0.2
442,069 + Sama_0363 0.49 +0.1
442,069 + Sama_0363 0.49 -2.9
442,070 - Sama_0363 0.49 -0.7
442,070 - Sama_0363 0.49 -1.3
442,070 - Sama_0363 0.49 -2.7
442,070 - Sama_0363 0.49 -2.3
442,070 - Sama_0363 0.49 -2.0
442,070 - Sama_0363 0.49 +1.6
442,070 - Sama_0363 0.49 -2.5
442,070 - Sama_0363 0.49 -1.7
442,070 - Sama_0363 0.49 +0.8
442,070 - Sama_0363 0.49 -0.0
442,070 - Sama_0363 0.49 +0.3
442,070 - Sama_0363 0.49 -0.4
442,070 - Sama_0363 0.49 -0.4
442,111 - Sama_0363 0.59 -1.6

Or see this region's nucleotide sequence