Strain Fitness in Erwinia tracheiphila SCR3 around LU632_RS25335

Experiment: plant=Squash; plant sample=QP3; plant location=NA

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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 ntLU632_RS25330 and LU632_RS25335 overlap by 59 nucleotidesLU632_RS25335 and LU632_RS25340 are separated by 7 nucleotidesLU632_RS25340 and LU632_RS25345 are separated by 100 nucleotides LU632_RS25330: LU632_RS25330 - DUF5710 domain-containing protein, at 214 to 840 _RS25330 LU632_RS25335: LU632_RS25335 - hypothetical protein, at 782 to 3,604 _RS25335 LU632_RS25340: LU632_RS25340 - hypothetical protein, at 3,612 to 4,055 _RS25340 LU632_RS25345: LU632_RS25345 - DotI/IcmL family type IV secretion protein, at 4,156 to 4,776 _RS25345 Position (kb) 0 1 2 3 4Strain fitness (log2 ratio) -2 -1 0 1 2 3at 0.045 kb on + strandat 0.072 kb on + strandat 0.209 kb on + strandat 0.209 kb on + strandat 0.209 kb on + strandat 0.210 kb on - strandat 0.210 kb on - strandat 0.210 kb on - strandat 0.213 kb on + strandat 0.226 kb on - strandat 0.226 kb on - strandat 0.230 kb on - strandat 0.238 kb on - strandat 0.238 kb on - strandat 0.298 kb on + strand, within LU632_RS25330at 0.298 kb on + strand, within LU632_RS25330at 0.298 kb on + strand, within LU632_RS25330at 0.298 kb on + strand, within LU632_RS25330at 0.299 kb on - strand, within LU632_RS25330at 0.299 kb on - strand, within LU632_RS25330at 0.299 kb on - strand, within LU632_RS25330at 0.299 kb on - strand, within LU632_RS25330at 0.299 kb on - strand, within LU632_RS25330at 0.299 kb on - strand, within LU632_RS25330at 0.310 kb on + strand, within LU632_RS25330at 0.560 kb on + strand, within LU632_RS25330at 0.560 kb on + strand, within LU632_RS25330at 0.560 kb on + strand, within LU632_RS25330at 0.560 kb on + strand, within LU632_RS25330at 0.561 kb on - strand, within LU632_RS25330at 0.561 kb on - strand, within LU632_RS25330at 0.561 kb on - strand, within LU632_RS25330at 0.562 kb on + strand, within LU632_RS25330at 0.562 kb on + strand, within LU632_RS25330at 0.598 kb on + strand, within LU632_RS25330at 0.658 kb on + strand, within LU632_RS25330at 0.658 kb on + strand, within LU632_RS25330at 0.658 kb on + strand, within LU632_RS25330at 0.659 kb on - strand, within LU632_RS25330at 0.659 kb on - strand, within LU632_RS25330at 0.659 kb on - strand, within LU632_RS25330at 0.722 kb on + strand, within LU632_RS25330at 0.722 kb on + strand, within LU632_RS25330at 0.723 kb on - strand, within LU632_RS25330at 0.723 kb on - strand, within LU632_RS25330at 0.723 kb on - strand, within LU632_RS25330at 0.809 kb on + strandat 0.810 kb on - strandat 0.857 kb on - strandat 0.861 kb on - strandat 0.861 kb on - strandat 0.861 kb on - strandat 0.883 kb on - strandat 0.883 kb on - strandat 0.887 kb on - strandat 0.887 kb on - strandat 0.917 kb on + strandat 0.917 kb on + strandat 0.918 kb on - strandat 0.918 kb on - strandat 1.032 kb on - strandat 1.050 kb on + strandat 1.051 kb on - strandat 1.256 kb on + strand, within LU632_RS25335at 1.257 kb on - strand, within LU632_RS25335at 1.334 kb on - strand, within LU632_RS25335at 1.420 kb on + strand, within LU632_RS25335at 1.517 kb on - strand, within LU632_RS25335at 1.546 kb on + strand, within LU632_RS25335at 1.546 kb on + strand, within LU632_RS25335at 1.547 kb on - strand, within LU632_RS25335at 1.547 kb on - strand, within LU632_RS25335at 1.549 kb on - strand, within LU632_RS25335at 1.549 kb on - strand, within LU632_RS25335at 1.549 kb on - strand, within LU632_RS25335at 1.668 kb on + strand, within LU632_RS25335at 1.668 kb on + strand, within LU632_RS25335at 1.668 kb on + strand, within LU632_RS25335at 1.668 kb on + strand, within LU632_RS25335at 1.668 kb on + strand, within LU632_RS25335at 1.669 kb on - strand, within LU632_RS25335at 1.669 kb on - strand, within LU632_RS25335at 1.669 kb on - strand, within LU632_RS25335at 1.669 kb on - strand, within LU632_RS25335at 1.716 kb on + strand, within LU632_RS25335at 1.858 kb on - strand, within LU632_RS25335at 1.858 kb on - strand, within LU632_RS25335at 2.105 kb on - strand, within LU632_RS25335at 2.162 kb on + strand, within LU632_RS25335at 2.162 kb on + strand, within LU632_RS25335at 2.163 kb on - strand, within LU632_RS25335at 2.364 kb on + strand, within LU632_RS25335at 2.364 kb on + strand, within LU632_RS25335at 2.365 kb on - strand, within LU632_RS25335at 2.365 kb on - strand, within LU632_RS25335at 2.365 kb on - strand, within LU632_RS25335at 2.494 kb on - strand, within LU632_RS25335at 2.494 kb on - strand, within LU632_RS25335at 2.494 kb on - strand, within LU632_RS25335at 2.497 kb on + strand, within LU632_RS25335at 2.498 kb on - strand, within LU632_RS25335at 2.643 kb on + strand, within LU632_RS25335at 2.643 kb on + strand, within LU632_RS25335at 2.667 kb on - strand, within LU632_RS25335at 2.699 kb on + strand, within LU632_RS25335at 2.699 kb on + strand, within LU632_RS25335at 2.699 kb on + strand, within LU632_RS25335at 2.700 kb on - strand, within LU632_RS25335at 2.807 kb on + strand, within LU632_RS25335at 2.807 kb on + strand, within LU632_RS25335at 2.808 kb on - strand, within LU632_RS25335at 2.808 kb on - strand, within LU632_RS25335at 2.830 kb on + strand, within LU632_RS25335at 2.830 kb on + strand, within LU632_RS25335at 2.831 kb on - strand, within LU632_RS25335at 2.831 kb on - strand, within LU632_RS25335at 2.831 kb on - strand, within LU632_RS25335at 2.873 kb on + strand, within LU632_RS25335at 2.982 kb on - strand, within LU632_RS25335at 2.982 kb on - strand, within LU632_RS25335at 2.982 kb on - strand, within LU632_RS25335at 2.982 kb on - strand, within LU632_RS25335at 3.078 kb on - strand, within LU632_RS25335at 3.078 kb on - strand, within LU632_RS25335at 3.080 kb on - strand, within LU632_RS25335at 3.276 kb on + strand, within LU632_RS25335at 3.617 kb on + strandat 3.708 kb on - strand, within LU632_RS25340at 3.721 kb on - strand, within LU632_RS25340at 3.804 kb on - strand, within LU632_RS25340at 3.906 kb on + strand, within LU632_RS25340at 3.907 kb on - strand, within LU632_RS25340at 3.907 kb on - strand, within LU632_RS25340at 3.940 kb on - strand, within LU632_RS25340at 4.023 kb on - strandat 4.038 kb on + strandat 4.038 kb on + strandat 4.038 kb on + strandat 4.038 kb on + strandat 4.038 kb on + strandat 4.039 kb on - strandat 4.039 kb on - strandat 4.039 kb on - strandat 4.039 kb on - strandat 4.135 kb on + strandat 4.136 kb on - strandat 4.136 kb on - strandat 4.200 kb on + strandat 4.300 kb on + strand, within LU632_RS25345at 4.443 kb on - strand, within LU632_RS25345at 4.443 kb on - strand, within LU632_RS25345at 4.487 kb on - strand, within LU632_RS25345at 4.487 kb on - strand, within LU632_RS25345at 4.489 kb on + strand, within LU632_RS25345at 4.490 kb on - strand, within LU632_RS25345at 4.490 kb on - strand, within LU632_RS25345at 4.490 kb on - strand, within LU632_RS25345

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Per-strain Table

Position Strand Gene LocusTag Fraction plant=Squash; plant sample=QP3; plant location=NA
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45 + +1.1
72 + -0.2
209 + +0.3
209 + +0.6
209 + -0.3
210 - +0.8
210 - +0.6
210 - -1.2
213 + -1.1
226 - +1.1
226 - +0.2
230 - -0.3
238 - +0.3
238 - +0.4
298 + LU632_RS25330 0.13 +0.2
298 + LU632_RS25330 0.13 +0.2
298 + LU632_RS25330 0.13 +0.7
298 + LU632_RS25330 0.13 -0.6
299 - LU632_RS25330 0.14 +1.2
299 - LU632_RS25330 0.14 -0.3
299 - LU632_RS25330 0.14 -1.6
299 - LU632_RS25330 0.14 -0.4
299 - LU632_RS25330 0.14 -0.3
299 - LU632_RS25330 0.14 +1.7
310 + LU632_RS25330 0.15 -0.3
560 + LU632_RS25330 0.55 +0.2
560 + LU632_RS25330 0.55 -0.1
560 + LU632_RS25330 0.55 -0.3
560 + LU632_RS25330 0.55 +0.5
561 - LU632_RS25330 0.55 -0.6
561 - LU632_RS25330 0.55 +0.3
561 - LU632_RS25330 0.55 +2.2
562 + LU632_RS25330 0.56 +0.3
562 + LU632_RS25330 0.56 -0.7
598 + LU632_RS25330 0.61 +0.2
658 + LU632_RS25330 0.71 +0.7
658 + LU632_RS25330 0.71 -0.3
658 + LU632_RS25330 0.71 -0.5
659 - LU632_RS25330 0.71 -0.4
659 - LU632_RS25330 0.71 -0.7
659 - LU632_RS25330 0.71 -1.4
722 + LU632_RS25330 0.81 +0.0
722 + LU632_RS25330 0.81 -0.1
723 - LU632_RS25330 0.81 -1.6
723 - LU632_RS25330 0.81 +0.1
723 - LU632_RS25330 0.81 -0.4
809 + +0.3
810 - +1.9
857 - +0.3
861 - -1.2
861 - -0.9
861 - -0.2
883 - +0.1
883 - +0.7
887 - +1.0
887 - -0.1
917 + -1.7
917 + +3.1
918 - +0.4
918 - -1.7
1,032 - +0.5
1,050 + +0.1
1,051 - -0.5
1,256 + LU632_RS25335 0.17 -1.4
1,257 - LU632_RS25335 0.17 +0.7
1,334 - LU632_RS25335 0.20 +0.7
1,420 + LU632_RS25335 0.23 +0.7
1,517 - LU632_RS25335 0.26 -2.6
1,546 + LU632_RS25335 0.27 +0.3
1,546 + LU632_RS25335 0.27 +0.1
1,547 - LU632_RS25335 0.27 +1.3
1,547 - LU632_RS25335 0.27 +0.0
1,549 - LU632_RS25335 0.27 -0.5
1,549 - LU632_RS25335 0.27 -0.4
1,549 - LU632_RS25335 0.27 +0.3
1,668 + LU632_RS25335 0.31 +0.0
1,668 + LU632_RS25335 0.31 +0.5
1,668 + LU632_RS25335 0.31 +2.7
1,668 + LU632_RS25335 0.31 -1.1
1,668 + LU632_RS25335 0.31 -1.3
1,669 - LU632_RS25335 0.31 +0.3
1,669 - LU632_RS25335 0.31 -1.4
1,669 - LU632_RS25335 0.31 -1.0
1,669 - LU632_RS25335 0.31 +1.0
1,716 + LU632_RS25335 0.33 -0.8
1,858 - LU632_RS25335 0.38 -0.7
1,858 - LU632_RS25335 0.38 -2.5
2,105 - LU632_RS25335 0.47 +0.0
2,162 + LU632_RS25335 0.49 +0.2
2,162 + LU632_RS25335 0.49 -0.3
2,163 - LU632_RS25335 0.49 +0.0
2,364 + LU632_RS25335 0.56 -1.0
2,364 + LU632_RS25335 0.56 +0.7
2,365 - LU632_RS25335 0.56 -0.5
2,365 - LU632_RS25335 0.56 +0.0
2,365 - LU632_RS25335 0.56 +0.4
2,494 - LU632_RS25335 0.61 -1.3
2,494 - LU632_RS25335 0.61 -0.3
2,494 - LU632_RS25335 0.61 +0.4
2,497 + LU632_RS25335 0.61 +0.7
2,498 - LU632_RS25335 0.61 -0.8
2,643 + LU632_RS25335 0.66 +0.7
2,643 + LU632_RS25335 0.66 -1.8
2,667 - LU632_RS25335 0.67 +0.2
2,699 + LU632_RS25335 0.68 +0.0
2,699 + LU632_RS25335 0.68 +0.8
2,699 + LU632_RS25335 0.68 +3.2
2,700 - LU632_RS25335 0.68 +0.4
2,807 + LU632_RS25335 0.72 -1.3
2,807 + LU632_RS25335 0.72 -0.8
2,808 - LU632_RS25335 0.72 -0.2
2,808 - LU632_RS25335 0.72 -1.7
2,830 + LU632_RS25335 0.73 +1.0
2,830 + LU632_RS25335 0.73 -1.3
2,831 - LU632_RS25335 0.73 -1.0
2,831 - LU632_RS25335 0.73 -1.8
2,831 - LU632_RS25335 0.73 -0.8
2,873 + LU632_RS25335 0.74 -1.3
2,982 - LU632_RS25335 0.78 +0.0
2,982 - LU632_RS25335 0.78 -0.1
2,982 - LU632_RS25335 0.78 -0.1
2,982 - LU632_RS25335 0.78 -0.8
3,078 - LU632_RS25335 0.81 -1.9
3,078 - LU632_RS25335 0.81 +1.2
3,080 - LU632_RS25335 0.81 -1.0
3,276 + LU632_RS25335 0.88 +1.0
3,617 + +0.6
3,708 - LU632_RS25340 0.22 +0.8
3,721 - LU632_RS25340 0.25 -0.1
3,804 - LU632_RS25340 0.43 -0.3
3,906 + LU632_RS25340 0.66 +0.6
3,907 - LU632_RS25340 0.66 -0.5
3,907 - LU632_RS25340 0.66 -0.8
3,940 - LU632_RS25340 0.74 -0.3
4,023 - -1.1
4,038 + -0.6
4,038 + +0.4
4,038 + +1.7
4,038 + -1.1
4,038 + +0.4
4,039 - -0.3
4,039 - -0.7
4,039 - -0.1
4,039 - -1.3
4,135 + +1.7
4,136 - -0.4
4,136 - -0.4
4,200 + -0.5
4,300 + LU632_RS25345 0.23 +2.2
4,443 - LU632_RS25345 0.46 +0.6
4,443 - LU632_RS25345 0.46 -0.3
4,487 - LU632_RS25345 0.53 +0.2
4,487 - LU632_RS25345 0.53 -1.3
4,489 + LU632_RS25345 0.54 -1.0
4,490 - LU632_RS25345 0.54 -0.6
4,490 - LU632_RS25345 0.54 +0.0
4,490 - LU632_RS25345 0.54 +1.1

Or see this region's nucleotide sequence