Strain Fitness in Dickeya dadantii 3937 around DDA3937_RS01325

Experiment: Upstate

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntDDA3937_RS01320 and DDA3937_RS01325 overlap by 1 nucleotidesDDA3937_RS01325 and DDA3937_RS01330 are separated by 90 nucleotidesDDA3937_RS01330 and DDA3937_RS23390 are separated by 111 nucleotidesDDA3937_RS23390 and DDA3937_RS01340 are separated by 189 nucleotides DDA3937_RS01320: DDA3937_RS01320 - site-specific integrase, at 296,712 to 297,932 _RS01320 DDA3937_RS01325: DDA3937_RS01325 - hypothetical protein, at 297,932 to 298,669 _RS01325 DDA3937_RS01330: DDA3937_RS01330 - AlpA family phage regulatory protein, at 298,760 to 298,984 _RS01330 DDA3937_RS23390: DDA3937_RS23390 - hypothetical protein, at 299,096 to 299,290 _RS23390 DDA3937_RS01340: DDA3937_RS01340 - hypothetical protein, at 299,480 to 299,701 _RS01340 Position (kb) 297 298 299Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 296.995 kb on + strand, within DDA3937_RS01320at 296.995 kb on + strand, within DDA3937_RS01320at 296.995 kb on + strand, within DDA3937_RS01320at 296.995 kb on + strand, within DDA3937_RS01320at 297.000 kb on - strand, within DDA3937_RS01320at 297.051 kb on + strand, within DDA3937_RS01320at 297.067 kb on - strand, within DDA3937_RS01320at 297.067 kb on - strand, within DDA3937_RS01320at 297.071 kb on + strand, within DDA3937_RS01320at 297.071 kb on + strand, within DDA3937_RS01320at 297.091 kb on + strand, within DDA3937_RS01320at 297.092 kb on - strand, within DDA3937_RS01320at 297.092 kb on - strand, within DDA3937_RS01320at 297.092 kb on - strand, within DDA3937_RS01320at 297.092 kb on - strand, within DDA3937_RS01320at 297.092 kb on - strand, within DDA3937_RS01320at 297.092 kb on - strand, within DDA3937_RS01320at 297.095 kb on + strand, within DDA3937_RS01320at 297.095 kb on + strand, within DDA3937_RS01320at 297.095 kb on + strand, within DDA3937_RS01320at 297.096 kb on - strand, within DDA3937_RS01320at 297.096 kb on - strand, within DDA3937_RS01320at 297.096 kb on - strand, within DDA3937_RS01320at 297.096 kb on - strand, within DDA3937_RS01320at 297.096 kb on - strand, within DDA3937_RS01320at 297.122 kb on + strand, within DDA3937_RS01320at 297.122 kb on + strand, within DDA3937_RS01320at 297.122 kb on + strand, within DDA3937_RS01320at 297.123 kb on - strand, within DDA3937_RS01320at 297.123 kb on - strand, within DDA3937_RS01320at 297.123 kb on - strand, within DDA3937_RS01320at 297.126 kb on + strand, within DDA3937_RS01320at 297.126 kb on + strand, within DDA3937_RS01320at 297.126 kb on + strand, within DDA3937_RS01320at 297.127 kb on - strand, within DDA3937_RS01320at 297.132 kb on + strand, within DDA3937_RS01320at 297.132 kb on + strand, within DDA3937_RS01320at 297.133 kb on - strand, within DDA3937_RS01320at 297.137 kb on - strand, within DDA3937_RS01320at 297.137 kb on - strand, within DDA3937_RS01320at 297.137 kb on - strand, within DDA3937_RS01320at 297.137 kb on - strand, within DDA3937_RS01320at 297.196 kb on + strand, within DDA3937_RS01320at 297.197 kb on - strand, within DDA3937_RS01320at 297.226 kb on - strand, within DDA3937_RS01320at 297.242 kb on + strand, within DDA3937_RS01320at 297.242 kb on + strand, within DDA3937_RS01320at 297.242 kb on + strand, within DDA3937_RS01320at 297.242 kb on + strand, within DDA3937_RS01320at 297.243 kb on - strand, within DDA3937_RS01320at 297.277 kb on - strand, within DDA3937_RS01320at 297.277 kb on - strandat 297.284 kb on + strand, within DDA3937_RS01320at 297.287 kb on + strand, within DDA3937_RS01320at 297.287 kb on + strand, within DDA3937_RS01320at 297.287 kb on + strand, within DDA3937_RS01320at 297.288 kb on - strand, within DDA3937_RS01320at 297.288 kb on - strand, within DDA3937_RS01320at 297.288 kb on - strand, within DDA3937_RS01320at 297.288 kb on - strand, within DDA3937_RS01320at 297.319 kb on + strand, within DDA3937_RS01320at 297.319 kb on + strand, within DDA3937_RS01320at 297.319 kb on + strand, within DDA3937_RS01320at 297.320 kb on - strand, within DDA3937_RS01320at 297.412 kb on - strand, within DDA3937_RS01320at 297.412 kb on - strand, within DDA3937_RS01320at 297.414 kb on + strand, within DDA3937_RS01320at 297.415 kb on - strand, within DDA3937_RS01320at 297.466 kb on + strand, within DDA3937_RS01320at 297.497 kb on - strand, within DDA3937_RS01320at 297.497 kb on - strand, within DDA3937_RS01320at 297.497 kb on - strand, within DDA3937_RS01320at 297.497 kb on - strand, within DDA3937_RS01320at 297.497 kb on - strand, within DDA3937_RS01320at 297.530 kb on + strand, within DDA3937_RS01320at 297.530 kb on + strand, within DDA3937_RS01320at 297.530 kb on + strand, within DDA3937_RS01320at 297.530 kb on + strand, within DDA3937_RS01320at 297.530 kb on + strand, within DDA3937_RS01320at 297.531 kb on - strand, within DDA3937_RS01320at 297.531 kb on - strand, within DDA3937_RS01320at 297.531 kb on - strand, within DDA3937_RS01320at 297.531 kb on - strand, within DDA3937_RS01320at 297.531 kb on - strand, within DDA3937_RS01320at 297.531 kb on - strand, within DDA3937_RS01320at 297.550 kb on + strand, within DDA3937_RS01320at 297.560 kb on + strand, within DDA3937_RS01320at 297.599 kb on + strand, within DDA3937_RS01320at 297.638 kb on - strand, within DDA3937_RS01320at 297.678 kb on + strand, within DDA3937_RS01320at 297.678 kb on + strand, within DDA3937_RS01320at 297.678 kb on + strand, within DDA3937_RS01320at 297.679 kb on - strand, within DDA3937_RS01320at 297.679 kb on - strand, within DDA3937_RS01320at 297.679 kb on - strand, within DDA3937_RS01320at 297.679 kb on - strand, within DDA3937_RS01320at 297.679 kb on - strand, within DDA3937_RS01320at 297.746 kb on - strand, within DDA3937_RS01320at 297.752 kb on + strand, within DDA3937_RS01320at 297.753 kb on - strand, within DDA3937_RS01320at 297.759 kb on - strand, within DDA3937_RS01320at 297.794 kb on + strand, within DDA3937_RS01320at 297.795 kb on - strand, within DDA3937_RS01320at 297.795 kb on - strand, within DDA3937_RS01320at 297.834 kb on + strandat 297.835 kb on - strandat 297.863 kb on + strandat 298.042 kb on + strand, within DDA3937_RS01325at 298.053 kb on - strand, within DDA3937_RS01325at 298.186 kb on + strand, within DDA3937_RS01325at 298.234 kb on + strand, within DDA3937_RS01325at 298.294 kb on + strand, within DDA3937_RS01325at 298.361 kb on + strand, within DDA3937_RS01325at 298.362 kb on - strand, within DDA3937_RS01325at 298.390 kb on - strand, within DDA3937_RS01325at 298.390 kb on - strand, within DDA3937_RS01325at 298.547 kb on - strand, within DDA3937_RS01325at 298.563 kb on + strand, within DDA3937_RS01325at 298.624 kb on - strandat 298.641 kb on - strandat 298.671 kb on - strandat 298.700 kb on + strandat 298.771 kb on + strandat 298.800 kb on + strand, within DDA3937_RS01330at 298.803 kb on + strand, within DDA3937_RS01330at 298.804 kb on - strand, within DDA3937_RS01330at 298.896 kb on + strand, within DDA3937_RS01330at 298.896 kb on + strand, within DDA3937_RS01330at 298.897 kb on - strand, within DDA3937_RS01330at 298.897 kb on - strand, within DDA3937_RS01330at 298.897 kb on - strand, within DDA3937_RS01330at 298.963 kb on + strandat 298.987 kb on + strandat 298.987 kb on + strandat 298.987 kb on + strandat 298.987 kb on + strandat 298.987 kb on + strandat 298.988 kb on - strandat 298.988 kb on - strandat 298.991 kb on + strandat 298.991 kb on + strandat 298.991 kb on + strandat 298.991 kb on + strandat 298.991 kb on + strandat 298.992 kb on - strandat 298.992 kb on - strandat 298.992 kb on - strandat 299.000 kb on + strandat 299.000 kb on + strandat 299.047 kb on + strandat 299.063 kb on + strandat 299.064 kb on - strandat 299.064 kb on - strandat 299.093 kb on + strandat 299.093 kb on + strandat 299.094 kb on - strandat 299.094 kb on - strandat 299.094 kb on - strandat 299.116 kb on + strand, within DDA3937_RS23390at 299.117 kb on - strand, within DDA3937_RS23390at 299.117 kb on - strand, within DDA3937_RS23390at 299.117 kb on - strand, within DDA3937_RS23390at 299.310 kb on - strandat 299.345 kb on - strandat 299.369 kb on + strandat 299.458 kb on + strandat 299.458 kb on + strandat 299.458 kb on + strandat 299.458 kb on + strandat 299.458 kb on + strandat 299.458 kb on + strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.459 kb on - strandat 299.479 kb on + strandat 299.537 kb on - strandat 299.537 kb on - strand, within DDA3937_RS01340at 299.537 kb on - strand, within DDA3937_RS01340at 299.537 kb on - strand, within DDA3937_RS01340at 299.537 kb on - strandat 299.537 kb on - strand, within DDA3937_RS01340at 299.537 kb on - strand, within DDA3937_RS01340at 299.537 kb on - strand, within DDA3937_RS01340at 299.570 kb on + strand, within DDA3937_RS01340at 299.570 kb on + strand, within DDA3937_RS01340at 299.570 kb on + strand, within DDA3937_RS01340at 299.570 kb on + strand, within DDA3937_RS01340at 299.571 kb on - strand, within DDA3937_RS01340at 299.571 kb on - strand, within DDA3937_RS01340at 299.571 kb on - strand, within DDA3937_RS01340at 299.649 kb on + strand, within DDA3937_RS01340at 299.650 kb on - strand, within DDA3937_RS01340at 299.656 kb on - strand, within DDA3937_RS01340

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Upstate
remove
296,995 + DDA3937_RS01320 0.23 +1.3
296,995 + DDA3937_RS01320 0.23 -0.1
296,995 + DDA3937_RS01320 0.23 -1.5
296,995 + DDA3937_RS01320 0.23 +2.2
297,000 - DDA3937_RS01320 0.24 -1.0
297,051 + DDA3937_RS01320 0.28 -1.7
297,067 - DDA3937_RS01320 0.29 +0.2
297,067 - DDA3937_RS01320 0.29 +0.3
297,071 + DDA3937_RS01320 0.29 +0.7
297,071 + DDA3937_RS01320 0.29 -1.0
297,091 + DDA3937_RS01320 0.31 -1.7
297,092 - DDA3937_RS01320 0.31 -0.6
297,092 - DDA3937_RS01320 0.31 +1.0
297,092 - DDA3937_RS01320 0.31 -2.5
297,092 - DDA3937_RS01320 0.31 +1.2
297,092 - DDA3937_RS01320 0.31 -0.5
297,092 - DDA3937_RS01320 0.31 -0.0
297,095 + DDA3937_RS01320 0.31 -1.0
297,095 + DDA3937_RS01320 0.31 -1.2
297,095 + DDA3937_RS01320 0.31 -0.3
297,096 - DDA3937_RS01320 0.31 +1.6
297,096 - DDA3937_RS01320 0.31 +0.9
297,096 - DDA3937_RS01320 0.31 +1.6
297,096 - DDA3937_RS01320 0.31 -0.8
297,096 - DDA3937_RS01320 0.31 -0.9
297,122 + DDA3937_RS01320 0.34 -0.1
297,122 + DDA3937_RS01320 0.34 +0.6
297,122 + DDA3937_RS01320 0.34 +0.3
297,123 - DDA3937_RS01320 0.34 -1.4
297,123 - DDA3937_RS01320 0.34 +0.5
297,123 - DDA3937_RS01320 0.34 +0.4
297,126 + DDA3937_RS01320 0.34 +0.1
297,126 + DDA3937_RS01320 0.34 -2.0
297,126 + DDA3937_RS01320 0.34 +3.4
297,127 - DDA3937_RS01320 0.34 +1.1
297,132 + DDA3937_RS01320 0.34 -1.0
297,132 + DDA3937_RS01320 0.34 +0.6
297,133 - DDA3937_RS01320 0.34 -0.3
297,137 - DDA3937_RS01320 0.35 +1.0
297,137 - DDA3937_RS01320 0.35 +0.1
297,137 - DDA3937_RS01320 0.35 +0.8
297,137 - DDA3937_RS01320 0.35 +1.3
297,196 + DDA3937_RS01320 0.40 -0.0
297,197 - DDA3937_RS01320 0.40 -0.1
297,226 - DDA3937_RS01320 0.42 +0.1
297,242 + DDA3937_RS01320 0.43 -1.6
297,242 + DDA3937_RS01320 0.43 -0.3
297,242 + DDA3937_RS01320 0.43 -0.0
297,242 + DDA3937_RS01320 0.43 -2.2
297,243 - DDA3937_RS01320 0.43 -0.3
297,277 - DDA3937_RS01320 0.46 +1.8
297,277 - +1.6
297,284 + DDA3937_RS01320 0.47 -1.6
297,287 + DDA3937_RS01320 0.47 +0.9
297,287 + DDA3937_RS01320 0.47 -0.3
297,287 + DDA3937_RS01320 0.47 +0.2
297,288 - DDA3937_RS01320 0.47 -1.2
297,288 - DDA3937_RS01320 0.47 -0.6
297,288 - DDA3937_RS01320 0.47 -0.5
297,288 - DDA3937_RS01320 0.47 -0.0
297,319 + DDA3937_RS01320 0.50 +0.7
297,319 + DDA3937_RS01320 0.50 +0.5
297,319 + DDA3937_RS01320 0.50 -0.2
297,320 - DDA3937_RS01320 0.50 -0.8
297,412 - DDA3937_RS01320 0.57 +0.9
297,412 - DDA3937_RS01320 0.57 -0.8
297,414 + DDA3937_RS01320 0.57 +0.7
297,415 - DDA3937_RS01320 0.58 -0.1
297,466 + DDA3937_RS01320 0.62 -1.4
297,497 - DDA3937_RS01320 0.64 -1.0
297,497 - DDA3937_RS01320 0.64 -1.0
297,497 - DDA3937_RS01320 0.64 -0.3
297,497 - DDA3937_RS01320 0.64 -0.3
297,497 - DDA3937_RS01320 0.64 -0.5
297,530 + DDA3937_RS01320 0.67 -0.3
297,530 + DDA3937_RS01320 0.67 -1.2
297,530 + DDA3937_RS01320 0.67 +1.1
297,530 + DDA3937_RS01320 0.67 -1.9
297,530 + DDA3937_RS01320 0.67 -0.3
297,531 - DDA3937_RS01320 0.67 +0.1
297,531 - DDA3937_RS01320 0.67 -0.6
297,531 - DDA3937_RS01320 0.67 +0.6
297,531 - DDA3937_RS01320 0.67 +1.0
297,531 - DDA3937_RS01320 0.67 +1.1
297,531 - DDA3937_RS01320 0.67 +0.1
297,550 + DDA3937_RS01320 0.69 -0.1
297,560 + DDA3937_RS01320 0.69 -0.8
297,599 + DDA3937_RS01320 0.73 +0.1
297,638 - DDA3937_RS01320 0.76 +0.1
297,678 + DDA3937_RS01320 0.79 +0.7
297,678 + DDA3937_RS01320 0.79 +0.6
297,678 + DDA3937_RS01320 0.79 +0.3
297,679 - DDA3937_RS01320 0.79 -3.1
297,679 - DDA3937_RS01320 0.79 +1.4
297,679 - DDA3937_RS01320 0.79 -0.1
297,679 - DDA3937_RS01320 0.79 -2.0
297,679 - DDA3937_RS01320 0.79 -0.2
297,746 - DDA3937_RS01320 0.85 -0.1
297,752 + DDA3937_RS01320 0.85 -0.2
297,753 - DDA3937_RS01320 0.85 -1.0
297,759 - DDA3937_RS01320 0.86 +2.1
297,794 + DDA3937_RS01320 0.89 -1.0
297,795 - DDA3937_RS01320 0.89 +0.5
297,795 - DDA3937_RS01320 0.89 +0.2
297,834 + +0.2
297,835 - +0.5
297,863 + -1.0
298,042 + DDA3937_RS01325 0.15 +0.9
298,053 - DDA3937_RS01325 0.16 -2.0
298,186 + DDA3937_RS01325 0.34 +0.6
298,234 + DDA3937_RS01325 0.41 +0.1
298,294 + DDA3937_RS01325 0.49 -0.3
298,361 + DDA3937_RS01325 0.58 +0.5
298,362 - DDA3937_RS01325 0.58 -0.1
298,390 - DDA3937_RS01325 0.62 +1.4
298,390 - DDA3937_RS01325 0.62 +0.6
298,547 - DDA3937_RS01325 0.83 +0.3
298,563 + DDA3937_RS01325 0.86 -1.4
298,624 - -1.1
298,641 - +0.1
298,671 - -0.4
298,700 + -1.2
298,771 + -2.0
298,800 + DDA3937_RS01330 0.18 -0.4
298,803 + DDA3937_RS01330 0.19 +0.4
298,804 - DDA3937_RS01330 0.20 -0.9
298,896 + DDA3937_RS01330 0.60 -1.0
298,896 + DDA3937_RS01330 0.60 -0.4
298,897 - DDA3937_RS01330 0.61 -1.0
298,897 - DDA3937_RS01330 0.61 +0.6
298,897 - DDA3937_RS01330 0.61 -0.3
298,963 + -1.2
298,987 + +0.1
298,987 + +0.6
298,987 + +0.6
298,987 + +1.8
298,987 + +0.2
298,988 - +0.1
298,988 - -1.1
298,991 + -0.8
298,991 + -1.1
298,991 + -1.4
298,991 + -0.4
298,991 + +0.3
298,992 - +0.6
298,992 - +0.2
298,992 - -0.1
299,000 + +0.6
299,000 + +0.8
299,047 + -1.3
299,063 + +0.5
299,064 - -1.0
299,064 - -1.2
299,093 + +1.0
299,093 + -0.7
299,094 - -0.4
299,094 - +0.6
299,094 - -0.2
299,116 + DDA3937_RS23390 0.10 -2.1
299,117 - DDA3937_RS23390 0.11 -1.1
299,117 - DDA3937_RS23390 0.11 -0.4
299,117 - DDA3937_RS23390 0.11 -0.4
299,310 - -1.9
299,345 - -1.1
299,369 + +1.8
299,458 + -0.8
299,458 + -0.2
299,458 + -2.4
299,458 + -0.4
299,458 + -0.4
299,458 + -1.3
299,459 - -0.3
299,459 - -0.2
299,459 - -0.9
299,459 - -0.2
299,459 - -0.4
299,459 - -0.4
299,459 - -1.2
299,459 - -1.8
299,459 - -0.2
299,459 - +0.2
299,479 + -0.9
299,537 - +0.6
299,537 - DDA3937_RS01340 0.26 -0.2
299,537 - DDA3937_RS01340 0.26 +1.4
299,537 - DDA3937_RS01340 0.26 +0.3
299,537 - -0.8
299,537 - DDA3937_RS01340 0.26 -0.9
299,537 - DDA3937_RS01340 0.26 +0.6
299,537 - DDA3937_RS01340 0.26 +1.2
299,570 + DDA3937_RS01340 0.41 -1.8
299,570 + DDA3937_RS01340 0.41 -1.6
299,570 + DDA3937_RS01340 0.41 -0.4
299,570 + DDA3937_RS01340 0.41 -0.0
299,571 - DDA3937_RS01340 0.41 -2.3
299,571 - DDA3937_RS01340 0.41 +0.6
299,571 - DDA3937_RS01340 0.41 -0.8
299,649 + DDA3937_RS01340 0.76 -1.4
299,650 - DDA3937_RS01340 0.77 +0.1
299,656 - DDA3937_RS01340 0.79 -0.7

Or see this region's nucleotide sequence