Strain Fitness in Paraburkholderia graminis OAS925 around ABIE53_004677

Experiment: caffeic 5 mM in soil extract

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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 ntABIE53_004675 and ABIE53_004676 are separated by 30 nucleotidesABIE53_004676 and ABIE53_004677 are separated by 229 nucleotidesABIE53_004677 and ABIE53_004678 are separated by 30 nucleotides ABIE53_004675: ABIE53_004675 - AcrR family transcriptional regulator, at 857,882 to 858,556 _004675 ABIE53_004676: ABIE53_004676 - nuclear transport factor 2 (NTF2) superfamily protein, at 858,587 to 859,066 _004676 ABIE53_004677: ABIE53_004677 - hypothetical protein, at 859,296 to 859,907 _004677 ABIE53_004678: ABIE53_004678 - Fe-S-cluster containining protein, at 859,938 to 860,723 _004678 Position (kb) 859 860Strain fitness (log2 ratio) -2 -1 0 1 2at 858.581 kb on + strandat 858.581 kb on + strandat 858.581 kb on + strandat 858.581 kb on + strandat 858.582 kb on - strandat 858.628 kb on + strandat 858.629 kb on - strandat 858.711 kb on - strand, within ABIE53_004676at 858.711 kb on - strand, within ABIE53_004676at 858.712 kb on + strand, within ABIE53_004676at 858.713 kb on - strand, within ABIE53_004676at 858.713 kb on - strand, within ABIE53_004676at 858.713 kb on - strand, within ABIE53_004676at 858.713 kb on - strand, within ABIE53_004676at 858.713 kb on - strand, within ABIE53_004676at 858.713 kb on - strand, within ABIE53_004676at 858.777 kb on + strand, within ABIE53_004676at 858.778 kb on - strand, within ABIE53_004676at 859.004 kb on + strand, within ABIE53_004676at 859.004 kb on + strand, within ABIE53_004676at 859.005 kb on - strand, within ABIE53_004676at 859.062 kb on + strandat 859.062 kb on + strandat 859.063 kb on - strandat 859.063 kb on - strandat 859.064 kb on + strandat 859.064 kb on + strandat 859.065 kb on - strandat 859.065 kb on - strandat 859.140 kb on + strandat 859.140 kb on + strandat 859.140 kb on + strandat 859.140 kb on + strandat 859.140 kb on + strandat 859.141 kb on - strandat 859.141 kb on - strandat 859.221 kb on + strandat 859.313 kb on + strandat 859.313 kb on + strandat 859.313 kb on + strandat 859.314 kb on - strandat 859.314 kb on - strandat 859.394 kb on + strand, within ABIE53_004677at 859.395 kb on - strand, within ABIE53_004677at 859.427 kb on - strand, within ABIE53_004677at 859.498 kb on + strand, within ABIE53_004677at 859.525 kb on - strand, within ABIE53_004677at 859.525 kb on - strand, within ABIE53_004677at 859.654 kb on - strand, within ABIE53_004677at 859.654 kb on - strand, within ABIE53_004677at 859.654 kb on - strand, within ABIE53_004677at 859.654 kb on - strand, within ABIE53_004677at 859.737 kb on + strand, within ABIE53_004677at 859.738 kb on - strand, within ABIE53_004677at 859.739 kb on + strand, within ABIE53_004677at 859.739 kb on + strand, within ABIE53_004677at 859.739 kb on + strand, within ABIE53_004677at 859.739 kb on + strand, within ABIE53_004677at 859.739 kb on + strand, within ABIE53_004677at 859.740 kb on - strand, within ABIE53_004677at 859.740 kb on - strand, within ABIE53_004677at 859.740 kb on - strand, within ABIE53_004677at 859.740 kb on - strand, within ABIE53_004677at 859.740 kb on - strand, within ABIE53_004677at 859.740 kb on - strand, within ABIE53_004677at 859.743 kb on + strand, within ABIE53_004677at 859.744 kb on - strand, within ABIE53_004677at 859.744 kb on - strand, within ABIE53_004677at 859.744 kb on - strand, within ABIE53_004677at 859.744 kb on - strand, within ABIE53_004677at 859.744 kb on - strand, within ABIE53_004677at 859.812 kb on + strand, within ABIE53_004677at 859.812 kb on + strand, within ABIE53_004677at 859.812 kb on + strand, within ABIE53_004677at 859.812 kb on + strand, within ABIE53_004677at 859.813 kb on - strand, within ABIE53_004677at 859.813 kb on - strand, within ABIE53_004677at 859.813 kb on - strand, within ABIE53_004677at 859.906 kb on - strandat 859.906 kb on - strandat 859.906 kb on - strandat 859.906 kb on - strandat 859.912 kb on + strandat 859.913 kb on - strandat 859.913 kb on - strandat 859.913 kb on - strandat 859.989 kb on - strandat 859.989 kb on - strandat 860.023 kb on - strand, within ABIE53_004678at 860.133 kb on + strand, within ABIE53_004678at 860.133 kb on + strand, within ABIE53_004678at 860.133 kb on + strand, within ABIE53_004678at 860.133 kb on + strand, within ABIE53_004678at 860.133 kb on + strand, within ABIE53_004678at 860.398 kb on + strand, within ABIE53_004678at 860.398 kb on + strand, within ABIE53_004678at 860.398 kb on + strand, within ABIE53_004678at 860.399 kb on - strand, within ABIE53_004678at 860.525 kb on + strand, within ABIE53_004678at 860.549 kb on + strand, within ABIE53_004678at 860.549 kb on + strand, within ABIE53_004678at 860.549 kb on + strand, within ABIE53_004678at 860.550 kb on - strand, within ABIE53_004678at 860.550 kb on - strand, within ABIE53_004678at 860.550 kb on - strand, within ABIE53_004678at 860.550 kb on - strand, within ABIE53_004678at 860.550 kb on - strand, within ABIE53_004678at 860.610 kb on + strand, within ABIE53_004678at 860.610 kb on + strand, within ABIE53_004678at 860.611 kb on - strand, within ABIE53_004678at 860.611 kb on - strand, within ABIE53_004678at 860.611 kb on - strand, within ABIE53_004678at 860.611 kb on - strand, within ABIE53_004678at 860.611 kb on - strand, within ABIE53_004678at 860.771 kb on - strandat 860.771 kb on - strandat 860.816 kb on - strandat 860.863 kb on + strandat 860.863 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction caffeic 5 mM in soil extract
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858,581 + +1.5
858,581 + -0.1
858,581 + +1.5
858,581 + -0.2
858,582 - +0.7
858,628 + +0.5
858,629 - -0.2
858,711 - ABIE53_004676 0.26 +0.2
858,711 - ABIE53_004676 0.26 +0.3
858,712 + ABIE53_004676 0.26 +0.9
858,713 - ABIE53_004676 0.26 +0.9
858,713 - ABIE53_004676 0.26 -1.6
858,713 - ABIE53_004676 0.26 +1.6
858,713 - ABIE53_004676 0.26 +0.1
858,713 - ABIE53_004676 0.26 -0.6
858,713 - ABIE53_004676 0.26 -0.3
858,777 + ABIE53_004676 0.40 -0.3
858,778 - ABIE53_004676 0.40 -0.7
859,004 + ABIE53_004676 0.87 +1.0
859,004 + ABIE53_004676 0.87 -0.7
859,005 - ABIE53_004676 0.87 +1.7
859,062 + +0.9
859,062 + -0.8
859,063 - -1.5
859,063 - +0.9
859,064 + +0.7
859,064 + -1.0
859,065 - -1.9
859,065 - +1.2
859,140 + +0.7
859,140 + +1.2
859,140 + -1.8
859,140 + -0.3
859,140 + -0.2
859,141 - -0.3
859,141 - -0.2
859,221 + -0.4
859,313 + -0.9
859,313 + -0.8
859,313 + -0.1
859,314 - -1.6
859,314 - +0.5
859,394 + ABIE53_004677 0.16 -1.8
859,395 - ABIE53_004677 0.16 -0.9
859,427 - ABIE53_004677 0.21 -0.1
859,498 + ABIE53_004677 0.33 -0.6
859,525 - ABIE53_004677 0.37 -1.2
859,525 - ABIE53_004677 0.37 -1.7
859,654 - ABIE53_004677 0.58 -0.3
859,654 - ABIE53_004677 0.58 -1.7
859,654 - ABIE53_004677 0.58 +0.4
859,654 - ABIE53_004677 0.58 +1.3
859,737 + ABIE53_004677 0.72 -0.8
859,738 - ABIE53_004677 0.72 -0.1
859,739 + ABIE53_004677 0.72 -0.8
859,739 + ABIE53_004677 0.72 -0.5
859,739 + ABIE53_004677 0.72 -0.2
859,739 + ABIE53_004677 0.72 +0.2
859,739 + ABIE53_004677 0.72 -0.4
859,740 - ABIE53_004677 0.73 +0.4
859,740 - ABIE53_004677 0.73 -1.8
859,740 - ABIE53_004677 0.73 +1.0
859,740 - ABIE53_004677 0.73 +1.9
859,740 - ABIE53_004677 0.73 +0.2
859,740 - ABIE53_004677 0.73 -1.3
859,743 + ABIE53_004677 0.73 -1.9
859,744 - ABIE53_004677 0.73 +2.7
859,744 - ABIE53_004677 0.73 +0.5
859,744 - ABIE53_004677 0.73 +0.7
859,744 - ABIE53_004677 0.73 -0.1
859,744 - ABIE53_004677 0.73 -1.3
859,812 + ABIE53_004677 0.84 +1.0
859,812 + ABIE53_004677 0.84 -0.3
859,812 + ABIE53_004677 0.84 -2.2
859,812 + ABIE53_004677 0.84 +0.6
859,813 - ABIE53_004677 0.84 -0.9
859,813 - ABIE53_004677 0.84 -1.1
859,813 - ABIE53_004677 0.84 +1.7
859,906 - +0.2
859,906 - -1.9
859,906 - -1.6
859,906 - -1.1
859,912 + +0.7
859,913 - +0.5
859,913 - -1.7
859,913 - +0.6
859,989 - -0.7
859,989 - +0.7
860,023 - ABIE53_004678 0.11 -0.8
860,133 + ABIE53_004678 0.25 +0.2
860,133 + ABIE53_004678 0.25 -2.1
860,133 + ABIE53_004678 0.25 +0.4
860,133 + ABIE53_004678 0.25 +0.3
860,133 + ABIE53_004678 0.25 -0.4
860,398 + ABIE53_004678 0.59 +0.2
860,398 + ABIE53_004678 0.59 +0.9
860,398 + ABIE53_004678 0.59 +0.9
860,399 - ABIE53_004678 0.59 +0.2
860,525 + ABIE53_004678 0.75 +0.6
860,549 + ABIE53_004678 0.78 +0.7
860,549 + ABIE53_004678 0.78 -1.6
860,549 + ABIE53_004678 0.78 +0.2
860,550 - ABIE53_004678 0.78 +1.2
860,550 - ABIE53_004678 0.78 -1.0
860,550 - ABIE53_004678 0.78 +1.5
860,550 - ABIE53_004678 0.78 -0.2
860,550 - ABIE53_004678 0.78 -1.7
860,610 + ABIE53_004678 0.85 +2.6
860,610 + ABIE53_004678 0.85 -0.6
860,611 - ABIE53_004678 0.86 -1.7
860,611 - ABIE53_004678 0.86 +0.4
860,611 - ABIE53_004678 0.86 +1.2
860,611 - ABIE53_004678 0.86 +0.1
860,611 - ABIE53_004678 0.86 -1.8
860,771 - -1.0
860,771 - +0.2
860,816 - +0.9
860,863 + +0.0
860,863 + -1.3

Or see this region's nucleotide sequence