Strain Fitness in Dickeya dadantii 3937 around DDA3937_RS01520

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_RS01515 and DDA3937_RS01520 are separated by 148 nucleotidesDDA3937_RS01520 and DDA3937_RS01525 are separated by 93 nucleotidesDDA3937_RS01525 and DDA3937_RS01530 are separated by 24 nucleotides DDA3937_RS01510: DDA3937_RS01510 - PTS phosphocarrier protein NPr, at 338,775 to 339,047 _RS01510 DDA3937_RS01515: DDA3937_RS01515 - RNase adapter RapZ, at 339,044 to 339,898 _RS01515 DDA3937_RS01520: DDA3937_RS01520 - PTS IIA-like nitrogen regulatory protein PtsN, at 340,047 to 340,535 _RS01520 DDA3937_RS01525: DDA3937_RS01525 - ribosome hibernation promoting factor, at 340,629 to 340,916 _RS01525 DDA3937_RS01530: DDA3937_RS01530 - RNA polymerase factor sigma-54, at 340,941 to 342,374 _RS01530 Position (kb) 340 341Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 339.083 kb on + strandat 339.083 kb on + strandat 339.084 kb on - strandat 339.132 kb on + strand, within DDA3937_RS01515at 339.132 kb on + strand, within DDA3937_RS01515at 339.132 kb on + strand, within DDA3937_RS01515at 339.132 kb on + strand, within DDA3937_RS01515at 339.133 kb on - strand, within DDA3937_RS01515at 339.133 kb on - strand, within DDA3937_RS01515at 339.133 kb on - strand, within DDA3937_RS01515at 339.175 kb on + strandat 339.176 kb on - strand, within DDA3937_RS01515at 339.180 kb on + strand, within DDA3937_RS01515at 339.180 kb on + strand, within DDA3937_RS01515at 339.180 kb on + strand, within DDA3937_RS01515at 339.180 kb on + strand, within DDA3937_RS01515at 339.181 kb on - strand, within DDA3937_RS01515at 339.181 kb on - strand, within DDA3937_RS01515at 339.181 kb on - strand, within DDA3937_RS01515at 339.181 kb on - strand, within DDA3937_RS01515at 339.181 kb on - strand, within DDA3937_RS01515at 339.225 kb on + strand, within DDA3937_RS01515at 339.225 kb on + strand, within DDA3937_RS01515at 339.226 kb on - strand, within DDA3937_RS01515at 339.226 kb on - strand, within DDA3937_RS01515at 339.226 kb on - strand, within DDA3937_RS01515at 339.240 kb on + strand, within DDA3937_RS01515at 339.240 kb on + strand, within DDA3937_RS01515at 339.241 kb on - strand, within DDA3937_RS01515at 339.241 kb on - strand, within DDA3937_RS01515at 339.241 kb on - strand, within DDA3937_RS01515at 339.241 kb on - strand, within DDA3937_RS01515at 339.241 kb on - strand, within DDA3937_RS01515at 339.337 kb on + strand, within DDA3937_RS01515at 339.364 kb on - strand, within DDA3937_RS01515at 339.364 kb on - strand, within DDA3937_RS01515at 339.394 kb on - strand, within DDA3937_RS01515at 339.394 kb on - strand, within DDA3937_RS01515at 339.476 kb on + strand, within DDA3937_RS01515at 339.476 kb on + strand, within DDA3937_RS01515at 339.477 kb on - strand, within DDA3937_RS01515at 339.493 kb on + strand, within DDA3937_RS01515at 339.629 kb on - strand, within DDA3937_RS01515at 339.754 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.812 kb on + strand, within DDA3937_RS01515at 339.813 kb on - strandat 339.813 kb on - strandat 339.813 kb on - strandat 339.813 kb on - strandat 339.813 kb on - strandat 339.813 kb on - strandat 339.819 kb on + strandat 339.819 kb on + strandat 339.819 kb on + strandat 339.820 kb on - strandat 339.948 kb on + strandat 339.948 kb on + strandat 339.948 kb on + strandat 339.952 kb on + strandat 339.953 kb on - strandat 339.953 kb on - strandat 340.088 kb on - strandat 340.169 kb on + strand, within DDA3937_RS01520at 340.169 kb on + strand, within DDA3937_RS01520at 340.169 kb on + strand, within DDA3937_RS01520at 340.169 kb on + strand, within DDA3937_RS01520at 340.169 kb on + strand, within DDA3937_RS01520at 340.169 kb on + strand, within DDA3937_RS01520at 340.169 kb on + strand, within DDA3937_RS01520at 340.169 kb on + strand, within DDA3937_RS01520at 340.169 kb on + strand, within DDA3937_RS01520at 340.170 kb on - strand, within DDA3937_RS01520at 340.170 kb on - strand, within DDA3937_RS01520at 340.170 kb on - strand, within DDA3937_RS01520at 340.170 kb on - strand, within DDA3937_RS01520at 340.170 kb on - strand, within DDA3937_RS01520at 340.170 kb on - strand, within DDA3937_RS01520at 340.170 kb on - strand, within DDA3937_RS01520at 340.173 kb on + strand, within DDA3937_RS01520at 340.173 kb on + strand, within DDA3937_RS01520at 340.173 kb on + strand, within DDA3937_RS01520at 340.174 kb on - strand, within DDA3937_RS01520at 340.174 kb on - strand, within DDA3937_RS01520at 340.174 kb on - strand, within DDA3937_RS01520at 340.184 kb on + strand, within DDA3937_RS01520at 340.184 kb on + strand, within DDA3937_RS01520at 340.185 kb on - strand, within DDA3937_RS01520at 340.185 kb on - strand, within DDA3937_RS01520at 340.185 kb on - strand, within DDA3937_RS01520at 340.298 kb on + strand, within DDA3937_RS01520at 340.298 kb on + strand, within DDA3937_RS01520at 340.299 kb on - strand, within DDA3937_RS01520at 340.508 kb on + strandat 340.509 kb on - strandat 340.509 kb on - strandat 340.538 kb on + strandat 340.538 kb on + strandat 340.539 kb on - strandat 340.539 kb on - strandat 340.539 kb on - strandat 340.549 kb on - strandat 340.565 kb on + strandat 340.565 kb on + strandat 340.566 kb on - strandat 340.566 kb on - strandat 340.566 kb on - strandat 340.566 kb on - strandat 340.646 kb on + strandat 340.646 kb on + strandat 340.652 kb on + strandat 340.652 kb on + strandat 340.653 kb on - strandat 340.653 kb on - strandat 340.653 kb on - strandat 340.663 kb on - strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.705 kb on + strand, within DDA3937_RS01525at 340.706 kb on - strand, within DDA3937_RS01525at 340.706 kb on - strand, within DDA3937_RS01525at 340.706 kb on - strand, within DDA3937_RS01525at 340.706 kb on - strand, within DDA3937_RS01525at 340.706 kb on - strand, within DDA3937_RS01525at 340.706 kb on - strand, within DDA3937_RS01525at 340.706 kb on - strand, within DDA3937_RS01525at 340.706 kb on - strand, within DDA3937_RS01525at 340.709 kb on + strand, within DDA3937_RS01525at 340.709 kb on + strand, within DDA3937_RS01525at 340.709 kb on + strandat 340.709 kb on + strand, within DDA3937_RS01525at 340.709 kb on + strand, within DDA3937_RS01525at 340.709 kb on + strand, within DDA3937_RS01525at 340.710 kb on - strand, within DDA3937_RS01525at 340.710 kb on - strand, within DDA3937_RS01525at 340.710 kb on - strand, within DDA3937_RS01525at 340.710 kb on - strand, within DDA3937_RS01525at 340.710 kb on - strand, within DDA3937_RS01525at 340.804 kb on + strand, within DDA3937_RS01525at 340.804 kb on + strand, within DDA3937_RS01525at 340.804 kb on + strand, within DDA3937_RS01525at 340.804 kb on + strand, within DDA3937_RS01525at 340.805 kb on - strand, within DDA3937_RS01525at 340.805 kb on - strand, within DDA3937_RS01525at 340.805 kb on - strand, within DDA3937_RS01525at 340.805 kb on - strand, within DDA3937_RS01525at 340.805 kb on - strand, within DDA3937_RS01525at 340.805 kb on - strand, within DDA3937_RS01525at 340.828 kb on + strand, within DDA3937_RS01525at 340.829 kb on - strand, within DDA3937_RS01525at 340.829 kb on - strand, within DDA3937_RS01525at 340.829 kb on - strand, within DDA3937_RS01525at 340.829 kb on - strand, within DDA3937_RS01525at 340.851 kb on + strand, within DDA3937_RS01525at 340.857 kb on + strand, within DDA3937_RS01525at 340.907 kb on + strandat 340.908 kb on - strandat 340.908 kb on - strandat 340.916 kb on + strandat 340.917 kb on - strandat 340.935 kb on + strandat 340.936 kb on - strandat 340.936 kb on - strandat 340.976 kb on + strandat 340.976 kb on + strandat 340.980 kb on + strandat 340.993 kb on + strandat 341.174 kb on - strand, within DDA3937_RS01530at 341.223 kb on + strand, within DDA3937_RS01530at 341.361 kb on - strand, within DDA3937_RS01530at 341.467 kb on + strand, within DDA3937_RS01530at 341.504 kb on + strand, within DDA3937_RS01530at 341.507 kb on + strand, within DDA3937_RS01530

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Per-strain Table

Position Strand Gene LocusTag Fraction PDB
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339,083 + -2.2
339,083 + -1.8
339,084 - +0.6
339,132 + DDA3937_RS01515 0.10 -2.9
339,132 + DDA3937_RS01515 0.10 -3.3
339,132 + DDA3937_RS01515 0.10 -1.2
339,132 + DDA3937_RS01515 0.10 -0.6
339,133 - DDA3937_RS01515 0.10 -3.0
339,133 - DDA3937_RS01515 0.10 -1.0
339,133 - DDA3937_RS01515 0.10 -1.2
339,175 + +1.6
339,176 - DDA3937_RS01515 0.15 -2.7
339,180 + DDA3937_RS01515 0.16 -4.2
339,180 + DDA3937_RS01515 0.16 -3.0
339,180 + DDA3937_RS01515 0.16 -1.6
339,180 + DDA3937_RS01515 0.16 -0.5
339,181 - DDA3937_RS01515 0.16 -1.0
339,181 - DDA3937_RS01515 0.16 -2.0
339,181 - DDA3937_RS01515 0.16 -1.5
339,181 - DDA3937_RS01515 0.16 -2.2
339,181 - DDA3937_RS01515 0.16 -2.0
339,225 + DDA3937_RS01515 0.21 -2.7
339,225 + DDA3937_RS01515 0.21 +0.0
339,226 - DDA3937_RS01515 0.21 +1.6
339,226 - DDA3937_RS01515 0.21 -3.8
339,226 - DDA3937_RS01515 0.21 -1.1
339,240 + DDA3937_RS01515 0.23 -0.4
339,240 + DDA3937_RS01515 0.23 -0.8
339,241 - DDA3937_RS01515 0.23 -0.8
339,241 - DDA3937_RS01515 0.23 -2.8
339,241 - DDA3937_RS01515 0.23 +0.3
339,241 - DDA3937_RS01515 0.23 -1.7
339,241 - DDA3937_RS01515 0.23 -2.8
339,337 + DDA3937_RS01515 0.34 -2.8
339,364 - DDA3937_RS01515 0.37 -1.7
339,364 - DDA3937_RS01515 0.37 -1.0
339,394 - DDA3937_RS01515 0.41 -2.4
339,394 - DDA3937_RS01515 0.41 -0.9
339,476 + DDA3937_RS01515 0.51 -1.4
339,476 + DDA3937_RS01515 0.51 -4.1
339,477 - DDA3937_RS01515 0.51 -2.1
339,493 + DDA3937_RS01515 0.53 -1.7
339,629 - DDA3937_RS01515 0.68 -1.2
339,754 + DDA3937_RS01515 0.83 -1.9
339,812 + DDA3937_RS01515 0.90 -2.7
339,812 + DDA3937_RS01515 0.90 -3.1
339,812 + DDA3937_RS01515 0.90 -3.8
339,812 + DDA3937_RS01515 0.90 -3.2
339,812 + DDA3937_RS01515 0.90 -2.7
339,812 + DDA3937_RS01515 0.90 +0.3
339,812 + DDA3937_RS01515 0.90 -2.2
339,812 + DDA3937_RS01515 0.90 -2.5
339,812 + DDA3937_RS01515 0.90 -3.4
339,813 - -3.7
339,813 - -0.8
339,813 - -3.0
339,813 - -3.1
339,813 - -1.7
339,813 - -1.6
339,819 + -0.7
339,819 + -2.8
339,819 + -2.0
339,820 - -2.6
339,948 + -1.6
339,948 + -2.3
339,948 + -1.0
339,952 + -1.2
339,953 - +0.0
339,953 - -3.7
340,088 - -1.7
340,169 + DDA3937_RS01520 0.25 -1.3
340,169 + DDA3937_RS01520 0.25 -2.4
340,169 + DDA3937_RS01520 0.25 -1.6
340,169 + DDA3937_RS01520 0.25 -1.6
340,169 + DDA3937_RS01520 0.25 -0.7
340,169 + DDA3937_RS01520 0.25 -1.7
340,169 + DDA3937_RS01520 0.25 -2.2
340,169 + DDA3937_RS01520 0.25 -2.1
340,169 + DDA3937_RS01520 0.25 -1.9
340,170 - DDA3937_RS01520 0.25 -0.7
340,170 - DDA3937_RS01520 0.25 -1.8
340,170 - DDA3937_RS01520 0.25 -2.3
340,170 - DDA3937_RS01520 0.25 -0.4
340,170 - DDA3937_RS01520 0.25 -0.8
340,170 - DDA3937_RS01520 0.25 -3.4
340,170 - DDA3937_RS01520 0.25 -2.8
340,173 + DDA3937_RS01520 0.26 -2.3
340,173 + DDA3937_RS01520 0.26 -0.7
340,173 + DDA3937_RS01520 0.26 -1.4
340,174 - DDA3937_RS01520 0.26 +1.6
340,174 - DDA3937_RS01520 0.26 -1.2
340,174 - DDA3937_RS01520 0.26 -1.2
340,184 + DDA3937_RS01520 0.28 -3.6
340,184 + DDA3937_RS01520 0.28 -0.5
340,185 - DDA3937_RS01520 0.28 -0.7
340,185 - DDA3937_RS01520 0.28 -1.4
340,185 - DDA3937_RS01520 0.28 -0.4
340,298 + DDA3937_RS01520 0.51 -2.5
340,298 + DDA3937_RS01520 0.51 -1.2
340,299 - DDA3937_RS01520 0.52 -1.7
340,508 + -3.0
340,509 - -2.2
340,509 - -2.7
340,538 + -1.7
340,538 + -2.2
340,539 - -1.0
340,539 - -1.8
340,539 - -3.6
340,549 - -0.5
340,565 + +0.2
340,565 + -3.0
340,566 - -1.4
340,566 - +0.1
340,566 - +1.6
340,566 - -2.0
340,646 + -1.4
340,646 + -0.7
340,652 + +0.0
340,652 + -1.6
340,653 - +1.9
340,653 - -2.5
340,653 - -0.1
340,663 - DDA3937_RS01525 0.12 -1.9
340,705 + DDA3937_RS01525 0.26 -2.0
340,705 + DDA3937_RS01525 0.26 -1.6
340,705 + DDA3937_RS01525 0.26 -2.8
340,705 + DDA3937_RS01525 0.26 -1.5
340,705 + DDA3937_RS01525 0.26 -1.3
340,705 + DDA3937_RS01525 0.26 -3.5
340,705 + DDA3937_RS01525 0.26 -2.6
340,705 + DDA3937_RS01525 0.26 -1.8
340,705 + DDA3937_RS01525 0.26 -2.0
340,706 - DDA3937_RS01525 0.27 -1.6
340,706 - DDA3937_RS01525 0.27 +1.6
340,706 - DDA3937_RS01525 0.27 -1.8
340,706 - DDA3937_RS01525 0.27 +0.3
340,706 - DDA3937_RS01525 0.27 -1.5
340,706 - DDA3937_RS01525 0.27 -1.3
340,706 - DDA3937_RS01525 0.27 -1.9
340,706 - DDA3937_RS01525 0.27 -0.4
340,709 + DDA3937_RS01525 0.28 -2.5
340,709 + DDA3937_RS01525 0.28 -1.2
340,709 + +0.6
340,709 + DDA3937_RS01525 0.28 -0.7
340,709 + DDA3937_RS01525 0.28 -1.7
340,709 + DDA3937_RS01525 0.28 -1.3
340,710 - DDA3937_RS01525 0.28 -0.7
340,710 - DDA3937_RS01525 0.28 +4.4
340,710 - DDA3937_RS01525 0.28 -1.4
340,710 - DDA3937_RS01525 0.28 -1.4
340,710 - DDA3937_RS01525 0.28 -1.0
340,804 + DDA3937_RS01525 0.61 -2.4
340,804 + DDA3937_RS01525 0.61 -1.7
340,804 + DDA3937_RS01525 0.61 -3.0
340,804 + DDA3937_RS01525 0.61 -1.9
340,805 - DDA3937_RS01525 0.61 -1.2
340,805 - DDA3937_RS01525 0.61 +0.5
340,805 - DDA3937_RS01525 0.61 +2.6
340,805 - DDA3937_RS01525 0.61 -1.0
340,805 - DDA3937_RS01525 0.61 -1.4
340,805 - DDA3937_RS01525 0.61 +0.6
340,828 + DDA3937_RS01525 0.69 -0.6
340,829 - DDA3937_RS01525 0.69 -1.7
340,829 - DDA3937_RS01525 0.69 -2.0
340,829 - DDA3937_RS01525 0.69 -1.7
340,829 - DDA3937_RS01525 0.69 -0.8
340,851 + DDA3937_RS01525 0.77 -2.1
340,857 + DDA3937_RS01525 0.79 -0.1
340,907 + -2.1
340,908 - +0.3
340,908 - +0.6
340,916 + -3.2
340,917 - -0.4
340,935 + -2.8
340,936 - -1.6
340,936 - +1.4
340,976 + +2.6
340,976 + +1.6
340,980 + -1.7
340,993 + -1.7
341,174 - DDA3937_RS01530 0.16 -0.8
341,223 + DDA3937_RS01530 0.20 -1.7
341,361 - DDA3937_RS01530 0.29 -0.8
341,467 + DDA3937_RS01530 0.37 +0.3
341,504 + DDA3937_RS01530 0.39 -2.2
341,507 + DDA3937_RS01530 0.39 -0.4

Or see this region's nucleotide sequence