Strain Fitness in Dinoroseobacter shibae DFL-12 around Dshi_0889

Experiment: m.b. Tetracycline 0.006 mg/ml

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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 ntDshi_0887 and Dshi_0888 are separated by 7 nucleotidesDshi_0888 and Dshi_0889 are separated by 14 nucleotidesDshi_0889 and Dshi_0890 are separated by 106 nucleotides Dshi_0887: Dshi_0887 - Serine--glyoxylate transaminase (RefSeq), at 902,124 to 903,314 _0887 Dshi_0888: Dshi_0888 - Pyridoxal-5'-phosphate-dependent protein beta subunit (RefSeq), at 903,322 to 904,296 _0888 Dshi_0889: Dshi_0889 - alanine racemase domain protein (RefSeq), at 904,311 to 905,474 _0889 Dshi_0890: Dshi_0890 - Ornithine cyclodeaminase (RefSeq), at 905,581 to 906,573 _0890 Position (kb) 904 905 906Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 903.387 kb on + strandat 903.395 kb on - strandat 903.405 kb on + strandat 903.410 kb on + strandat 903.410 kb on + strandat 903.414 kb on + strandat 903.428 kb on - strand, within Dshi_0888at 903.444 kb on + strand, within Dshi_0888at 903.536 kb on + strand, within Dshi_0888at 903.544 kb on - strand, within Dshi_0888at 903.581 kb on + strand, within Dshi_0888at 903.756 kb on - strand, within Dshi_0888at 903.830 kb on + strand, within Dshi_0888at 903.891 kb on + strand, within Dshi_0888at 903.913 kb on - strand, within Dshi_0888at 903.942 kb on - strand, within Dshi_0888at 903.953 kb on + strand, within Dshi_0888at 903.999 kb on + strand, within Dshi_0888at 904.056 kb on - strand, within Dshi_0888at 904.099 kb on - strand, within Dshi_0888at 904.099 kb on - strand, within Dshi_0888at 904.099 kb on - strand, within Dshi_0888at 904.173 kb on + strand, within Dshi_0888at 904.186 kb on - strand, within Dshi_0888at 904.186 kb on - strand, within Dshi_0888at 904.199 kb on - strandat 904.250 kb on - strandat 904.290 kb on + strandat 904.291 kb on + strandat 904.295 kb on + strandat 904.299 kb on - strandat 904.337 kb on + strandat 904.425 kb on + strandat 904.561 kb on + strand, within Dshi_0889at 904.561 kb on + strand, within Dshi_0889at 904.592 kb on - strand, within Dshi_0889at 904.623 kb on + strand, within Dshi_0889at 905.066 kb on + strand, within Dshi_0889at 905.067 kb on + strand, within Dshi_0889at 905.077 kb on + strand, within Dshi_0889at 905.085 kb on - strand, within Dshi_0889at 905.218 kb on + strand, within Dshi_0889at 905.313 kb on - strand, within Dshi_0889at 905.356 kb on - strand, within Dshi_0889at 905.402 kb on - strandat 905.402 kb on - strandat 905.413 kb on - strandat 905.473 kb on - strandat 905.486 kb on + strandat 905.530 kb on + strandat 905.576 kb on + strandat 905.653 kb on + strandat 905.708 kb on - strand, within Dshi_0890at 905.715 kb on - strand, within Dshi_0890at 905.802 kb on - strand, within Dshi_0890at 905.808 kb on + strand, within Dshi_0890at 905.859 kb on + strand, within Dshi_0890at 905.867 kb on - strand, within Dshi_0890at 905.948 kb on + strand, within Dshi_0890at 905.954 kb on - strand, within Dshi_0890at 905.956 kb on - strand, within Dshi_0890at 905.968 kb on - strand, within Dshi_0890at 906.003 kb on + strand, within Dshi_0890at 906.013 kb on + strand, within Dshi_0890at 906.026 kb on + strand, within Dshi_0890at 906.026 kb on - strand, within Dshi_0890at 906.245 kb on + strand, within Dshi_0890at 906.258 kb on - strand, within Dshi_0890at 906.258 kb on - strand, within Dshi_0890at 906.258 kb on - strand, within Dshi_0890at 906.281 kb on - strand, within Dshi_0890at 906.324 kb on - strand, within Dshi_0890at 906.468 kb on - strand, within Dshi_0890

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Per-strain Table

Position Strand Gene LocusTag Fraction m.b. Tetracycline 0.006 mg/ml
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903,387 + +1.1
903,395 - +1.1
903,405 + -2.0
903,410 + +0.1
903,410 + +0.2
903,414 + -0.3
903,428 - Dshi_0888 0.11 +0.1
903,444 + Dshi_0888 0.13 -1.5
903,536 + Dshi_0888 0.22 +0.1
903,544 - Dshi_0888 0.23 -0.8
903,581 + Dshi_0888 0.27 -1.1
903,756 - Dshi_0888 0.45 -0.8
903,830 + Dshi_0888 0.52 -1.1
903,891 + Dshi_0888 0.58 -1.4
903,913 - Dshi_0888 0.61 -1.7
903,942 - Dshi_0888 0.64 +0.2
903,953 + Dshi_0888 0.65 +0.5
903,999 + Dshi_0888 0.69 +2.0
904,056 - Dshi_0888 0.75 -2.5
904,099 - Dshi_0888 0.80 +0.7
904,099 - Dshi_0888 0.80 +2.1
904,099 - Dshi_0888 0.80 -0.7
904,173 + Dshi_0888 0.87 -3.2
904,186 - Dshi_0888 0.89 +0.2
904,186 - Dshi_0888 0.89 +0.1
904,199 - +0.1
904,250 - -0.8
904,290 + -0.1
904,291 + -0.7
904,295 + -0.5
904,299 - -0.5
904,337 + -0.2
904,425 + -1.3
904,561 + Dshi_0889 0.21 -2.5
904,561 + Dshi_0889 0.21 -0.5
904,592 - Dshi_0889 0.24 +0.2
904,623 + Dshi_0889 0.27 -1.8
905,066 + Dshi_0889 0.65 +0.1
905,067 + Dshi_0889 0.65 -2.8
905,077 + Dshi_0889 0.66 -1.0
905,085 - Dshi_0889 0.66 -0.0
905,218 + Dshi_0889 0.78 +0.5
905,313 - Dshi_0889 0.86 -0.5
905,356 - Dshi_0889 0.90 -1.3
905,402 - +0.0
905,402 - -0.1
905,413 - +1.1
905,473 - -2.1
905,486 + -0.1
905,530 + +1.9
905,576 + -0.3
905,653 + +1.1
905,708 - Dshi_0890 0.13 -1.7
905,715 - Dshi_0890 0.13 -0.1
905,802 - Dshi_0890 0.22 -1.4
905,808 + Dshi_0890 0.23 -0.7
905,859 + Dshi_0890 0.28 +2.1
905,867 - Dshi_0890 0.29 +0.1
905,948 + Dshi_0890 0.37 +0.3
905,954 - Dshi_0890 0.38 +2.5
905,956 - Dshi_0890 0.38 -0.3
905,968 - Dshi_0890 0.39 -1.1
906,003 + Dshi_0890 0.42 -0.3
906,013 + Dshi_0890 0.44 +0.1
906,026 + Dshi_0890 0.45 -2.1
906,026 - Dshi_0890 0.45 -1.5
906,245 + Dshi_0890 0.67 -1.2
906,258 - Dshi_0890 0.68 -0.1
906,258 - Dshi_0890 0.68 +4.4
906,258 - Dshi_0890 0.68 +2.1
906,281 - Dshi_0890 0.70 -0.8
906,324 - Dshi_0890 0.75 -1.1
906,468 - Dshi_0890 0.89 +2.8

Or see this region's nucleotide sequence