Strain Fitness in Pseudomonas syringae pv. syringae B728a around Psyr_0005

Experiment: KB with Berberine 250 ug/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 ntPsyr_0004 and Psyr_0005 are separated by 55 nucleotidesPsyr_0005 and Psyr_0006 are separated by 27 nucleotides Psyr_0004: Psyr_0004 - DNA gyrase subunit B, at 3,809 to 6,226 _0004 Psyr_0005: Psyr_0005 - conserved hypothetical protein, at 6,282 to 7,169 _0005 Psyr_0006: Psyr_0006 - putative phenylacetaldoxime dehydratase, at 7,197 to 8,231 _0006 Position (kb) 6 7 8Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 6.233 kb on + strandat 6.233 kb on + strandat 6.233 kb on + strandat 6.234 kb on - strandat 6.234 kb on - strandat 6.284 kb on - strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.345 kb on + strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.346 kb on - strandat 6.415 kb on + strand, within Psyr_0005at 6.415 kb on + strand, within Psyr_0005at 6.415 kb on + strand, within Psyr_0005at 6.415 kb on + strand, within Psyr_0005at 6.416 kb on - strand, within Psyr_0005at 6.416 kb on - strand, within Psyr_0005at 6.416 kb on - strand, within Psyr_0005at 6.416 kb on - strand, within Psyr_0005at 6.419 kb on + strand, within Psyr_0005at 6.419 kb on + strand, within Psyr_0005at 6.420 kb on - strand, within Psyr_0005at 6.420 kb on - strand, within Psyr_0005at 6.420 kb on - strand, within Psyr_0005at 6.420 kb on - strand, within Psyr_0005at 6.420 kb on - strand, within Psyr_0005at 6.420 kb on - strand, within Psyr_0005at 6.476 kb on + strand, within Psyr_0005at 6.477 kb on - strand, within Psyr_0005at 6.520 kb on + strand, within Psyr_0005at 6.520 kb on + strand, within Psyr_0005at 6.521 kb on - strand, within Psyr_0005at 6.521 kb on - strand, within Psyr_0005at 6.521 kb on - strand, within Psyr_0005at 6.521 kb on - strand, within Psyr_0005at 6.529 kb on + strand, within Psyr_0005at 6.530 kb on - strand, within Psyr_0005at 6.530 kb on - strand, within Psyr_0005at 6.583 kb on + strand, within Psyr_0005at 6.584 kb on - strand, within Psyr_0005at 6.658 kb on + strand, within Psyr_0005at 6.658 kb on + strand, within Psyr_0005at 6.658 kb on + strand, within Psyr_0005at 6.658 kb on + strand, within Psyr_0005at 6.658 kb on + strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.659 kb on - strand, within Psyr_0005at 6.721 kb on + strand, within Psyr_0005at 6.721 kb on + strand, within Psyr_0005at 6.740 kb on - strand, within Psyr_0005at 6.740 kb on - strand, within Psyr_0005at 6.740 kb on - strand, within Psyr_0005at 6.770 kb on + strand, within Psyr_0005at 6.770 kb on + strand, within Psyr_0005at 6.770 kb on + strand, within Psyr_0005at 6.770 kb on + strand, within Psyr_0005at 6.770 kb on + strand, within Psyr_0005at 6.770 kb on + strand, within Psyr_0005at 6.770 kb on + strand, within Psyr_0005at 6.771 kb on - strand, within Psyr_0005at 6.771 kb on - strand, within Psyr_0005at 6.771 kb on - strand, within Psyr_0005at 6.771 kb on - strand, within Psyr_0005at 6.783 kb on + strand, within Psyr_0005at 6.900 kb on + strand, within Psyr_0005at 6.901 kb on - strand, within Psyr_0005at 6.901 kb on - strand, within Psyr_0005at 6.937 kb on + strand, within Psyr_0005at 6.937 kb on + strand, within Psyr_0005at 6.937 kb on + strand, within Psyr_0005at 6.937 kb on + strand, within Psyr_0005at 6.938 kb on - strand, within Psyr_0005at 6.938 kb on - strand, within Psyr_0005at 6.938 kb on - strand, within Psyr_0005at 6.938 kb on - strand, within Psyr_0005at 7.001 kb on - strand, within Psyr_0005at 7.030 kb on + strand, within Psyr_0005at 7.031 kb on - strand, within Psyr_0005at 7.070 kb on - strand, within Psyr_0005at 7.125 kb on - strandat 7.169 kb on + strandat 7.169 kb on + strandat 7.170 kb on - strandat 7.170 kb on - strandat 7.170 kb on - strandat 7.170 kb on - strandat 7.188 kb on + strandat 7.189 kb on - strandat 7.246 kb on + strandat 7.247 kb on - strandat 7.247 kb on - strandat 7.283 kb on - strandat 7.317 kb on + strand, within Psyr_0006at 7.317 kb on + strand, within Psyr_0006at 7.317 kb on + strand, within Psyr_0006at 7.317 kb on + strandat 7.317 kb on + strand, within Psyr_0006at 7.317 kb on + strand, within Psyr_0006at 7.317 kb on + strand, within Psyr_0006at 7.318 kb on - strand, within Psyr_0006at 7.318 kb on - strand, within Psyr_0006at 7.318 kb on - strand, within Psyr_0006at 7.318 kb on - strand, within Psyr_0006at 7.318 kb on - strand, within Psyr_0006at 7.321 kb on + strand, within Psyr_0006at 7.322 kb on - strand, within Psyr_0006at 7.322 kb on - strand, within Psyr_0006at 7.322 kb on - strand, within Psyr_0006at 7.535 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.536 kb on + strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.537 kb on - strand, within Psyr_0006at 7.550 kb on - strand, within Psyr_0006at 7.550 kb on - strand, within Psyr_0006at 7.628 kb on + strand, within Psyr_0006at 7.628 kb on + strand, within Psyr_0006at 7.628 kb on + strand, within Psyr_0006at 7.628 kb on + strand, within Psyr_0006at 7.628 kb on + strand, within Psyr_0006at 7.628 kb on + strand, within Psyr_0006at 7.628 kb on + strand, within Psyr_0006at 7.628 kb on + strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.629 kb on - strand, within Psyr_0006at 7.676 kb on + strand, within Psyr_0006at 7.676 kb on + strand, within Psyr_0006at 7.676 kb on + strand, within Psyr_0006at 7.677 kb on - strand, within Psyr_0006at 7.710 kb on - strand, within Psyr_0006at 7.749 kb on - strand, within Psyr_0006at 7.849 kb on - strand, within Psyr_0006at 7.849 kb on - strand, within Psyr_0006at 7.963 kb on - strand, within Psyr_0006at 7.970 kb on + strand, within Psyr_0006at 7.970 kb on + strand, within Psyr_0006at 8.098 kb on + strand, within Psyr_0006at 8.098 kb on + strand, within Psyr_0006at 8.098 kb on + strand, within Psyr_0006at 8.099 kb on - strand, within Psyr_0006at 8.099 kb on - strand, within Psyr_0006at 8.099 kb on - strand, within Psyr_0006at 8.099 kb on - strand, within Psyr_0006at 8.099 kb on - strand, within Psyr_0006at 8.099 kb on - strand, within Psyr_0006at 8.165 kb on - strandat 8.165 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction KB with Berberine 250 ug/ml
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6,233 + +0.8
6,233 + +0.7
6,233 + -0.2
6,234 - -0.2
6,234 - +0.9
6,284 - -1.4
6,345 + -0.0
6,345 + +0.5
6,345 + -0.1
6,345 + +0.5
6,345 + -1.5
6,345 + -1.2
6,345 + -0.5
6,345 + +0.0
6,345 + -0.0
6,345 + -0.7
6,345 + -1.2
6,345 + -1.1
6,346 - -0.6
6,346 - -0.8
6,346 - -0.8
6,346 - -0.8
6,346 - -0.2
6,346 - +0.5
6,346 - -0.3
6,346 - -0.5
6,346 - +0.3
6,346 - +0.1
6,346 - -1.2
6,415 + Psyr_0005 0.15 +0.7
6,415 + Psyr_0005 0.15 -0.6
6,415 + Psyr_0005 0.15 -0.6
6,415 + Psyr_0005 0.15 -0.5
6,416 - Psyr_0005 0.15 +0.5
6,416 - Psyr_0005 0.15 -0.5
6,416 - Psyr_0005 0.15 -0.8
6,416 - Psyr_0005 0.15 -0.5
6,419 + Psyr_0005 0.15 -0.9
6,419 + Psyr_0005 0.15 +1.6
6,420 - Psyr_0005 0.16 -1.2
6,420 - Psyr_0005 0.16 -1.4
6,420 - Psyr_0005 0.16 -0.1
6,420 - Psyr_0005 0.16 +1.0
6,420 - Psyr_0005 0.16 +0.5
6,420 - Psyr_0005 0.16 -2.7
6,476 + Psyr_0005 0.22 -0.7
6,477 - Psyr_0005 0.22 -0.1
6,520 + Psyr_0005 0.27 +0.7
6,520 + Psyr_0005 0.27 +0.7
6,521 - Psyr_0005 0.27 -0.5
6,521 - Psyr_0005 0.27 -0.4
6,521 - Psyr_0005 0.27 +0.6
6,521 - Psyr_0005 0.27 -2.5
6,529 + Psyr_0005 0.28 +0.1
6,530 - Psyr_0005 0.28 -0.5
6,530 - Psyr_0005 0.28 -0.6
6,583 + Psyr_0005 0.34 +1.9
6,584 - Psyr_0005 0.34 -1.7
6,658 + Psyr_0005 0.42 +0.0
6,658 + Psyr_0005 0.42 -1.2
6,658 + Psyr_0005 0.42 +0.4
6,658 + Psyr_0005 0.42 +0.0
6,658 + Psyr_0005 0.42 -0.6
6,659 - Psyr_0005 0.42 -1.0
6,659 - Psyr_0005 0.42 +0.9
6,659 - Psyr_0005 0.42 -0.7
6,659 - Psyr_0005 0.42 -0.7
6,659 - Psyr_0005 0.42 +0.0
6,659 - Psyr_0005 0.42 -0.4
6,659 - Psyr_0005 0.42 +0.9
6,659 - Psyr_0005 0.42 +0.7
6,659 - Psyr_0005 0.42 -0.2
6,721 + Psyr_0005 0.49 -0.7
6,721 + Psyr_0005 0.49 -0.2
6,740 - Psyr_0005 0.52 -0.3
6,740 - Psyr_0005 0.52 +0.2
6,740 - Psyr_0005 0.52 -0.7
6,770 + Psyr_0005 0.55 -0.5
6,770 + Psyr_0005 0.55 +0.2
6,770 + Psyr_0005 0.55 -0.0
6,770 + Psyr_0005 0.55 -0.4
6,770 + Psyr_0005 0.55 -0.1
6,770 + Psyr_0005 0.55 -0.2
6,770 + Psyr_0005 0.55 +0.4
6,771 - Psyr_0005 0.55 +0.5
6,771 - Psyr_0005 0.55 +1.3
6,771 - Psyr_0005 0.55 +0.0
6,771 - Psyr_0005 0.55 -0.9
6,783 + Psyr_0005 0.56 -0.2
6,900 + Psyr_0005 0.70 -0.1
6,901 - Psyr_0005 0.70 -1.3
6,901 - Psyr_0005 0.70 -1.2
6,937 + Psyr_0005 0.74 +0.1
6,937 + Psyr_0005 0.74 +0.1
6,937 + Psyr_0005 0.74 +0.6
6,937 + Psyr_0005 0.74 -1.4
6,938 - Psyr_0005 0.74 +0.9
6,938 - Psyr_0005 0.74 +1.1
6,938 - Psyr_0005 0.74 +0.1
6,938 - Psyr_0005 0.74 -0.4
7,001 - Psyr_0005 0.81 +0.3
7,030 + Psyr_0005 0.84 -0.2
7,031 - Psyr_0005 0.84 -0.2
7,070 - Psyr_0005 0.89 +1.2
7,125 - -0.3
7,169 + -0.7
7,169 + +0.1
7,170 - -2.7
7,170 - +0.3
7,170 - -1.4
7,170 - -0.3
7,188 + +0.2
7,189 - -0.4
7,246 + +0.4
7,247 - -0.1
7,247 - +1.2
7,283 - -0.1
7,317 + Psyr_0006 0.12 -0.5
7,317 + Psyr_0006 0.12 -0.5
7,317 + Psyr_0006 0.12 -1.0
7,317 + +0.9
7,317 + Psyr_0006 0.12 +0.1
7,317 + Psyr_0006 0.12 -1.1
7,317 + Psyr_0006 0.12 -0.0
7,318 - Psyr_0006 0.12 +0.7
7,318 - Psyr_0006 0.12 -1.5
7,318 - Psyr_0006 0.12 -0.2
7,318 - Psyr_0006 0.12 -1.2
7,318 - Psyr_0006 0.12 +0.2
7,321 + Psyr_0006 0.12 -0.7
7,322 - Psyr_0006 0.12 -0.1
7,322 - Psyr_0006 0.12 +0.4
7,322 - Psyr_0006 0.12 -0.2
7,535 + Psyr_0006 0.33 -1.1
7,536 + Psyr_0006 0.33 +0.0
7,536 + Psyr_0006 0.33 +2.9
7,536 + Psyr_0006 0.33 -1.7
7,536 + Psyr_0006 0.33 -0.2
7,536 + Psyr_0006 0.33 +0.4
7,536 + Psyr_0006 0.33 -0.2
7,536 + Psyr_0006 0.33 -1.2
7,536 + Psyr_0006 0.33 -0.6
7,536 + Psyr_0006 0.33 +0.6
7,537 - Psyr_0006 0.33 +1.0
7,537 - Psyr_0006 0.33 -1.1
7,537 - Psyr_0006 0.33 -2.8
7,537 - Psyr_0006 0.33 -0.5
7,537 - Psyr_0006 0.33 -0.2
7,537 - Psyr_0006 0.33 -0.9
7,537 - Psyr_0006 0.33 +0.7
7,537 - Psyr_0006 0.33 -1.1
7,537 - Psyr_0006 0.33 +1.9
7,537 - Psyr_0006 0.33 +0.6
7,537 - Psyr_0006 0.33 -0.1
7,537 - Psyr_0006 0.33 -1.3
7,550 - Psyr_0006 0.34 +0.4
7,550 - Psyr_0006 0.34 -0.4
7,628 + Psyr_0006 0.42 -0.5
7,628 + Psyr_0006 0.42 +1.2
7,628 + Psyr_0006 0.42 -0.4
7,628 + Psyr_0006 0.42 -0.8
7,628 + Psyr_0006 0.42 -0.6
7,628 + Psyr_0006 0.42 -0.4
7,628 + Psyr_0006 0.42 -1.4
7,628 + Psyr_0006 0.42 -1.9
7,629 - Psyr_0006 0.42 -0.7
7,629 - Psyr_0006 0.42 -2.2
7,629 - Psyr_0006 0.42 -0.4
7,629 - Psyr_0006 0.42 +0.6
7,629 - Psyr_0006 0.42 -3.7
7,629 - Psyr_0006 0.42 -2.1
7,629 - Psyr_0006 0.42 -1.5
7,629 - Psyr_0006 0.42 -1.1
7,629 - Psyr_0006 0.42 +0.3
7,676 + Psyr_0006 0.46 -0.9
7,676 + Psyr_0006 0.46 +0.6
7,676 + Psyr_0006 0.46 -0.8
7,677 - Psyr_0006 0.46 -0.7
7,710 - Psyr_0006 0.50 -0.3
7,749 - Psyr_0006 0.53 -0.1
7,849 - Psyr_0006 0.63 -0.5
7,849 - Psyr_0006 0.63 -1.6
7,963 - Psyr_0006 0.74 -1.3
7,970 + Psyr_0006 0.75 -1.8
7,970 + Psyr_0006 0.75 -1.1
8,098 + Psyr_0006 0.87 -0.3
8,098 + Psyr_0006 0.87 -0.4
8,098 + Psyr_0006 0.87 -0.1
8,099 - Psyr_0006 0.87 -0.7
8,099 - Psyr_0006 0.87 -0.9
8,099 - Psyr_0006 0.87 -0.9
8,099 - Psyr_0006 0.87 +2.5
8,099 - Psyr_0006 0.87 +0.9
8,099 - Psyr_0006 0.87 -0.7
8,165 - +0.3
8,165 - -0.9

Or see this region's nucleotide sequence