Strain Fitness in Dickeya dadantii 3937 around DDA3937_RS03985

Experiment: PDB

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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 ntDDA3937_RS03980 and DDA3937_RS21900 are separated by 36 nucleotidesDDA3937_RS21900 and DDA3937_RS03985 are separated by 217 nucleotidesDDA3937_RS03985 and DDA3937_RS03990 overlap by 4 nucleotidesDDA3937_RS03990 and DDA3937_RS03995 are separated by 53 nucleotides DDA3937_RS03980: DDA3937_RS03980 - LysR family transcriptional regulator, at 888,714 to 889,628 _RS03980 DDA3937_RS21900: DDA3937_RS21900 - entry exclusion lipoprotein TrbK, at 889,665 to 889,913 _RS21900 DDA3937_RS03985: DDA3937_RS03985 - conjugal transfer protein TraG, at 890,131 to 892,086 _RS03985 DDA3937_RS03990: DDA3937_RS03990 - CopG family transcriptional regulator, at 892,083 to 892,523 _RS03990 DDA3937_RS03995: DDA3937_RS03995 - P-type conjugative transfer ATPase TrbB, at 892,577 to 893,530 _RS03995 Position (kb) 890 891 892 893Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 889.134 kb on + strand, within DDA3937_RS03980at 889.134 kb on + strand, within DDA3937_RS03980at 889.135 kb on - strand, within DDA3937_RS03980at 889.135 kb on - strand, within DDA3937_RS03980at 889.135 kb on - strand, within DDA3937_RS03980at 889.135 kb on - strand, within DDA3937_RS03980at 889.178 kb on + strand, within DDA3937_RS03980at 889.178 kb on + strand, within DDA3937_RS03980at 889.179 kb on - strand, within DDA3937_RS03980at 889.179 kb on - strand, within DDA3937_RS03980at 889.246 kb on - strand, within DDA3937_RS03980at 889.306 kb on + strand, within DDA3937_RS03980at 889.306 kb on + strand, within DDA3937_RS03980at 889.306 kb on + strand, within DDA3937_RS03980at 889.307 kb on - strand, within DDA3937_RS03980at 889.307 kb on - strand, within DDA3937_RS03980at 889.307 kb on - strand, within DDA3937_RS03980at 889.451 kb on + strand, within DDA3937_RS03980at 889.452 kb on - strand, within DDA3937_RS03980at 889.521 kb on + strand, within DDA3937_RS03980at 889.521 kb on + strand, within DDA3937_RS03980at 889.521 kb on + strand, within DDA3937_RS03980at 889.521 kb on + strand, within DDA3937_RS03980at 889.521 kb on + strand, within DDA3937_RS03980at 889.522 kb on - strand, within DDA3937_RS03980at 889.522 kb on - strand, within DDA3937_RS03980at 889.659 kb on - strandat 889.665 kb on - strandat 889.742 kb on - strand, within DDA3937_RS21900at 889.742 kb on - strand, within DDA3937_RS21900at 889.750 kb on + strand, within DDA3937_RS21900at 889.750 kb on + strand, within DDA3937_RS21900at 889.772 kb on - strand, within DDA3937_RS21900at 889.881 kb on + strand, within DDA3937_RS21900at 890.002 kb on - strandat 890.003 kb on + strandat 890.003 kb on + strandat 890.004 kb on - strandat 890.092 kb on + strandat 890.147 kb on + strandat 890.153 kb on + strandat 890.154 kb on - strandat 890.200 kb on + strandat 890.285 kb on - strandat 890.329 kb on + strand, within DDA3937_RS03985at 890.449 kb on + strand, within DDA3937_RS03985at 890.481 kb on + strand, within DDA3937_RS03985at 890.501 kb on - strand, within DDA3937_RS03985at 890.532 kb on + strandat 890.654 kb on + strand, within DDA3937_RS03985at 890.654 kb on + strand, within DDA3937_RS03985at 890.755 kb on + strand, within DDA3937_RS03985at 890.756 kb on - strand, within DDA3937_RS03985at 891.214 kb on + strand, within DDA3937_RS03985at 891.214 kb on + strand, within DDA3937_RS03985at 891.215 kb on - strand, within DDA3937_RS03985at 891.237 kb on + strand, within DDA3937_RS03985at 891.337 kb on - strand, within DDA3937_RS03985at 891.337 kb on - strand, within DDA3937_RS03985at 891.547 kb on - strand, within DDA3937_RS03985at 891.601 kb on + strand, within DDA3937_RS03985at 891.601 kb on + strand, within DDA3937_RS03985at 891.602 kb on - strand, within DDA3937_RS03985at 891.763 kb on + strand, within DDA3937_RS03985at 891.826 kb on + strand, within DDA3937_RS03985at 891.826 kb on + strand, within DDA3937_RS03985at 891.827 kb on - strand, within DDA3937_RS03985at 891.827 kb on - strand, within DDA3937_RS03985at 891.827 kb on - strand, within DDA3937_RS03985at 891.827 kb on - strand, within DDA3937_RS03985at 892.045 kb on - strandat 892.325 kb on + strandat 892.335 kb on + strand, within DDA3937_RS03990at 892.335 kb on + strand, within DDA3937_RS03990at 892.336 kb on - strand, within DDA3937_RS03990at 892.530 kb on + strandat 892.531 kb on - strandat 892.531 kb on - strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.576 kb on + strandat 892.577 kb on - strandat 892.577 kb on - strandat 892.577 kb on - strandat 892.577 kb on - strandat 892.577 kb on - strandat 892.577 kb on - strandat 892.577 kb on - strandat 892.577 kb on - strandat 892.577 kb on - strandat 892.583 kb on + strandat 892.584 kb on - strandat 892.648 kb on + strandat 892.648 kb on + strandat 892.649 kb on - strandat 892.649 kb on - strandat 892.649 kb on - strandat 892.836 kb on + strand, within DDA3937_RS03995at 892.837 kb on - strand, within DDA3937_RS03995at 892.876 kb on + strand, within DDA3937_RS03995at 892.876 kb on + strand, within DDA3937_RS03995at 892.910 kb on + strand, within DDA3937_RS03995at 892.910 kb on + strand, within DDA3937_RS03995at 892.910 kb on + strand, within DDA3937_RS03995

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Per-strain Table

Position Strand Gene LocusTag Fraction PDB
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889,134 + DDA3937_RS03980 0.46 -3.2
889,134 + DDA3937_RS03980 0.46 -0.6
889,135 - DDA3937_RS03980 0.46 -0.5
889,135 - DDA3937_RS03980 0.46 +0.2
889,135 - DDA3937_RS03980 0.46 +0.0
889,135 - DDA3937_RS03980 0.46 +3.0
889,178 + DDA3937_RS03980 0.51 -1.5
889,178 + DDA3937_RS03980 0.51 -1.3
889,179 - DDA3937_RS03980 0.51 -1.5
889,179 - DDA3937_RS03980 0.51 -0.8
889,246 - DDA3937_RS03980 0.58 +0.0
889,306 + DDA3937_RS03980 0.65 -0.1
889,306 + DDA3937_RS03980 0.65 -1.0
889,306 + DDA3937_RS03980 0.65 -0.6
889,307 - DDA3937_RS03980 0.65 -0.1
889,307 - DDA3937_RS03980 0.65 +1.0
889,307 - DDA3937_RS03980 0.65 +0.1
889,451 + DDA3937_RS03980 0.81 -2.8
889,452 - DDA3937_RS03980 0.81 -2.0
889,521 + DDA3937_RS03980 0.88 -2.5
889,521 + DDA3937_RS03980 0.88 -1.1
889,521 + DDA3937_RS03980 0.88 -1.0
889,521 + DDA3937_RS03980 0.88 -2.0
889,521 + DDA3937_RS03980 0.88 +0.2
889,522 - DDA3937_RS03980 0.88 -0.1
889,522 - DDA3937_RS03980 0.88 -3.2
889,659 - -1.3
889,665 - -0.1
889,742 - DDA3937_RS21900 0.31 -1.4
889,742 - DDA3937_RS21900 0.31 -1.2
889,750 + DDA3937_RS21900 0.34 -0.9
889,750 + DDA3937_RS21900 0.34 -1.6
889,772 - DDA3937_RS21900 0.43 -1.3
889,881 + DDA3937_RS21900 0.87 -0.6
890,002 - -0.9
890,003 + -2.3
890,003 + +2.8
890,004 - +1.2
890,092 + +2.0
890,147 + +2.0
890,153 + +1.2
890,154 - -0.3
890,200 + -0.8
890,285 - -1.1
890,329 + DDA3937_RS03985 0.10 -2.5
890,449 + DDA3937_RS03985 0.16 -0.8
890,481 + DDA3937_RS03985 0.18 -0.4
890,501 - DDA3937_RS03985 0.19 +0.7
890,532 + +0.0
890,654 + DDA3937_RS03985 0.27 -0.2
890,654 + DDA3937_RS03985 0.27 -2.6
890,755 + DDA3937_RS03985 0.32 -3.1
890,756 - DDA3937_RS03985 0.32 -0.3
891,214 + DDA3937_RS03985 0.55 -1.3
891,214 + DDA3937_RS03985 0.55 -0.6
891,215 - DDA3937_RS03985 0.55 -0.4
891,237 + DDA3937_RS03985 0.57 -1.0
891,337 - DDA3937_RS03985 0.62 -0.6
891,337 - DDA3937_RS03985 0.62 -0.2
891,547 - DDA3937_RS03985 0.72 +0.0
891,601 + DDA3937_RS03985 0.75 -1.5
891,601 + DDA3937_RS03985 0.75 -2.5
891,602 - DDA3937_RS03985 0.75 -1.3
891,763 + DDA3937_RS03985 0.83 +0.7
891,826 + DDA3937_RS03985 0.87 -2.5
891,826 + DDA3937_RS03985 0.87 -1.1
891,827 - DDA3937_RS03985 0.87 -2.6
891,827 - DDA3937_RS03985 0.87 +0.8
891,827 - DDA3937_RS03985 0.87 -1.0
891,827 - DDA3937_RS03985 0.87 +1.3
892,045 - -0.1
892,325 + -0.3
892,335 + DDA3937_RS03990 0.57 +0.3
892,335 + DDA3937_RS03990 0.57 -0.5
892,336 - DDA3937_RS03990 0.57 +1.0
892,530 + -0.8
892,531 - -0.3
892,531 - +0.4
892,576 + -0.1
892,576 + -1.4
892,576 + +2.0
892,576 + +0.4
892,576 + +0.5
892,576 + +0.6
892,576 + +0.4
892,576 + -0.6
892,576 + +2.0
892,576 + +0.9
892,576 + -1.7
892,576 + +3.0
892,577 - -0.3
892,577 - -1.3
892,577 - -2.5
892,577 - -0.9
892,577 - -0.9
892,577 - -1.0
892,577 - -1.3
892,577 - -2.1
892,577 - +0.2
892,583 + -0.6
892,584 - -1.1
892,648 + -1.2
892,648 + -1.5
892,649 - -2.4
892,649 - +1.0
892,649 - +0.6
892,836 + DDA3937_RS03995 0.27 -0.6
892,837 - DDA3937_RS03995 0.27 +1.0
892,876 + DDA3937_RS03995 0.31 -1.5
892,876 + DDA3937_RS03995 0.31 -0.3
892,910 + DDA3937_RS03995 0.35 +0.2
892,910 + DDA3937_RS03995 0.35 +0.6
892,910 + DDA3937_RS03995 0.35 -3.6

Or see this region's nucleotide sequence