Strain Fitness in Erwinia tracheiphila HP pepo 2.2 around IJEDHG_02615

Experiment: plant=Squash; plant sample=QP2; plant location=NA

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 ntarnB and IJEDHG_02610 are separated by 600 nucleotidesIJEDHG_02610 and IJEDHG_02615 are separated by 177 nucleotidesIJEDHG_02615 and IJEDHG_02620 overlap by 11 nucleotides IJEDHG_02605: arnB - UDP-4-amino-4-deoxy-L-arabinose aminotransferase, at 360,161 to 361,312 arnB IJEDHG_02610: IJEDHG_02610 - hypothetical protein, at 361,913 to 362,050 _02610 IJEDHG_02615: IJEDHG_02615 - ABC-type xenobiotic transporter, at 362,228 to 364,351 _02615 IJEDHG_02620: IJEDHG_02620 - colicin V secretion protein CvaA, at 364,341 to 365,621 _02620 Position (kb) 362 363 364 365Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 361.313 kb on - strandat 361.366 kb on + strandat 361.412 kb on - strandat 361.476 kb on + strandat 361.478 kb on + strandat 361.479 kb on - strandat 361.546 kb on - strandat 361.546 kb on - strandat 361.616 kb on - strandat 361.685 kb on - strandat 361.695 kb on + strandat 361.696 kb on - strandat 361.697 kb on + strandat 361.697 kb on + strandat 361.842 kb on + strandat 361.850 kb on + strandat 361.851 kb on - strandat 362.053 kb on + strandat 362.053 kb on + strandat 362.054 kb on - strandat 362.054 kb on - strandat 362.109 kb on - strandat 362.119 kb on - strandat 362.229 kb on + strandat 362.255 kb on + strandat 362.261 kb on - strandat 362.261 kb on - strandat 362.287 kb on + strandat 362.346 kb on - strandat 362.418 kb on - strandat 362.418 kb on - strandat 362.484 kb on - strand, within IJEDHG_02615at 362.528 kb on - strand, within IJEDHG_02615at 362.528 kb on - strand, within IJEDHG_02615at 362.528 kb on - strand, within IJEDHG_02615at 362.528 kb on - strand, within IJEDHG_02615at 362.528 kb on - strand, within IJEDHG_02615at 362.590 kb on + strand, within IJEDHG_02615at 362.804 kb on - strand, within IJEDHG_02615at 362.810 kb on - strand, within IJEDHG_02615at 362.966 kb on + strand, within IJEDHG_02615at 363.160 kb on + strand, within IJEDHG_02615at 363.266 kb on - strand, within IJEDHG_02615at 363.372 kb on + strand, within IJEDHG_02615at 363.373 kb on - strand, within IJEDHG_02615at 363.428 kb on + strand, within IJEDHG_02615at 363.428 kb on + strand, within IJEDHG_02615at 363.629 kb on - strand, within IJEDHG_02615at 363.704 kb on + strand, within IJEDHG_02615at 363.704 kb on + strand, within IJEDHG_02615at 363.705 kb on - strand, within IJEDHG_02615at 363.815 kb on + strand, within IJEDHG_02615at 363.816 kb on - strand, within IJEDHG_02615at 363.816 kb on - strand, within IJEDHG_02615at 363.887 kb on + strand, within IJEDHG_02615at 364.010 kb on - strand, within IJEDHG_02615at 364.057 kb on + strand, within IJEDHG_02615at 364.133 kb on + strand, within IJEDHG_02615at 364.133 kb on + strand, within IJEDHG_02615at 364.134 kb on - strand, within IJEDHG_02615at 364.175 kb on - strandat 364.175 kb on - strandat 364.226 kb on + strandat 364.227 kb on - strandat 364.227 kb on - strandat 364.227 kb on - strandat 364.227 kb on - strandat 364.303 kb on + strandat 364.342 kb on + strandat 364.343 kb on - strandat 364.395 kb on + strandat 364.396 kb on - strandat 364.396 kb on - strandat 364.408 kb on + strandat 364.740 kb on + strand, within IJEDHG_02620at 364.842 kb on + strand, within IJEDHG_02620at 364.899 kb on + strand, within IJEDHG_02620at 364.899 kb on + strand, within IJEDHG_02620at 364.900 kb on - strand, within IJEDHG_02620at 364.900 kb on - strand, within IJEDHG_02620at 364.949 kb on + strand, within IJEDHG_02620at 364.949 kb on + strand, within IJEDHG_02620at 365.096 kb on - strand, within IJEDHG_02620at 365.117 kb on + strand, within IJEDHG_02620at 365.214 kb on - strand, within IJEDHG_02620at 365.244 kb on - strand, within IJEDHG_02620at 365.292 kb on + strand, within IJEDHG_02620at 365.293 kb on - strand, within IJEDHG_02620at 365.293 kb on - strand, within IJEDHG_02620

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction plant=Squash; plant sample=QP2; plant location=NA
remove
361,313 - -1.8
361,366 + -2.2
361,412 - +0.6
361,476 + -0.1
361,478 + +1.4
361,479 - -0.5
361,546 - -0.0
361,546 - +2.3
361,616 - -0.2
361,685 - -0.2
361,695 + -0.6
361,696 - +0.3
361,697 + -1.6
361,697 + -2.1
361,842 + -1.1
361,850 + +1.6
361,851 - -0.2
362,053 + -1.1
362,053 + +1.9
362,054 - -0.2
362,054 - -2.5
362,109 - -3.7
362,119 - +0.5
362,229 + +0.2
362,255 + -0.3
362,261 - -0.9
362,261 - +0.8
362,287 + +2.5
362,346 - +2.0
362,418 - +0.0
362,418 - -0.3
362,484 - IJEDHG_02615 0.12 -0.2
362,528 - IJEDHG_02615 0.14 -0.3
362,528 - IJEDHG_02615 0.14 +1.2
362,528 - IJEDHG_02615 0.14 +0.4
362,528 - IJEDHG_02615 0.14 +0.2
362,528 - IJEDHG_02615 0.14 +1.0
362,590 + IJEDHG_02615 0.17 -0.2
362,804 - IJEDHG_02615 0.27 -0.0
362,810 - IJEDHG_02615 0.27 -0.2
362,966 + IJEDHG_02615 0.35 +0.4
363,160 + IJEDHG_02615 0.44 +0.4
363,266 - IJEDHG_02615 0.49 -2.1
363,372 + IJEDHG_02615 0.54 -0.7
363,373 - IJEDHG_02615 0.54 -0.7
363,428 + IJEDHG_02615 0.56 -3.2
363,428 + IJEDHG_02615 0.56 -2.8
363,629 - IJEDHG_02615 0.66 -1.1
363,704 + IJEDHG_02615 0.69 +0.1
363,704 + IJEDHG_02615 0.69 -0.2
363,705 - IJEDHG_02615 0.70 -0.4
363,815 + IJEDHG_02615 0.75 -0.6
363,816 - IJEDHG_02615 0.75 -0.5
363,816 - IJEDHG_02615 0.75 -0.2
363,887 + IJEDHG_02615 0.78 +0.2
364,010 - IJEDHG_02615 0.84 +1.7
364,057 + IJEDHG_02615 0.86 +0.7
364,133 + IJEDHG_02615 0.90 +0.0
364,133 + IJEDHG_02615 0.90 -0.6
364,134 - IJEDHG_02615 0.90 +0.3
364,175 - +0.3
364,175 - +0.9
364,226 + -0.5
364,227 - +1.2
364,227 - -0.9
364,227 - -0.3
364,227 - -2.3
364,303 + -1.0
364,342 + +0.2
364,343 - +0.0
364,395 + +0.6
364,396 - -1.9
364,396 - -0.8
364,408 + -1.3
364,740 + IJEDHG_02620 0.31 +0.8
364,842 + IJEDHG_02620 0.39 +0.1
364,899 + IJEDHG_02620 0.44 +1.0
364,899 + IJEDHG_02620 0.44 -1.4
364,900 - IJEDHG_02620 0.44 -0.4
364,900 - IJEDHG_02620 0.44 +0.2
364,949 + IJEDHG_02620 0.47 +0.9
364,949 + IJEDHG_02620 0.47 -0.8
365,096 - IJEDHG_02620 0.59 -0.5
365,117 + IJEDHG_02620 0.61 -0.5
365,214 - IJEDHG_02620 0.68 +0.1
365,244 - IJEDHG_02620 0.70 -0.2
365,292 + IJEDHG_02620 0.74 -0.4
365,293 - IJEDHG_02620 0.74 -1.5
365,293 - IJEDHG_02620 0.74 +0.5

Or see this region's nucleotide sequence