Experiment: plant=Squash; plant sample=QP3; plant location=NA
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.
500 nt vgrG and LU632_RS03905 overlap by 4 nucleotides LU632_RS03905 and LU632_RS03910 are separated by 3 nucleotides LU632_RS03910 and LU632_RS03915 are separated by 161 nucleotides LU632_RS03915 and LU632_RS03920 overlap by 4 nucleotides
LU632_RS03900: vgrG - type VI secretion system tip protein VgrG, at 781,439 to 783,370
vgrG
LU632_RS03905: LU632_RS03905 - DUF1795 domain-containing protein, at 783,367 to 783,798
_RS03905
LU632_RS03910: LU632_RS03910 - DUF6531 domain-containing protein, at 783,802 to 787,896
_RS03910
LU632_RS03915: LU632_RS03915 - HNH/ENDO VII family nuclease, at 788,058 to 788,339
_RS03915
LU632_RS03920: LU632_RS03920 - SMI1/KNR4 family protein, at 788,336 to 788,767
_RS03920
Position (kb) 783
784
785
786
787
788 Strain fitness (log2 ratio) -3
-2
-1
0
1
2 at 782.954 kb on - strand, within vgrG at 783.093 kb on - strand, within vgrG at 783.271 kb on + strand at 783.347 kb on - strand at 783.520 kb on + strand, within LU632_RS03905 at 783.521 kb on - strand, within LU632_RS03905 at 783.895 kb on + strand at 783.908 kb on + strand at 783.966 kb on - strand at 784.105 kb on - strand at 784.105 kb on - strand at 784.324 kb on + strand, within LU632_RS03910 at 784.337 kb on + strand, within LU632_RS03910 at 784.338 kb on - strand, within LU632_RS03910 at 784.401 kb on + strand, within LU632_RS03910 at 784.404 kb on + strand, within LU632_RS03910 at 784.405 kb on - strand, within LU632_RS03910 at 784.892 kb on - strand, within LU632_RS03910 at 785.086 kb on + strand, within LU632_RS03910 at 785.112 kb on + strand, within LU632_RS03910 at 785.252 kb on + strand, within LU632_RS03910 at 785.290 kb on + strand, within LU632_RS03910 at 785.321 kb on + strand, within LU632_RS03910 at 785.368 kb on + strand, within LU632_RS03910 at 785.368 kb on + strand, within LU632_RS03910 at 785.369 kb on - strand, within LU632_RS03910 at 785.494 kb on + strand, within LU632_RS03910 at 785.622 kb on - strand, within LU632_RS03910 at 785.695 kb on + strand, within LU632_RS03910 at 785.695 kb on + strand, within LU632_RS03910 at 785.695 kb on + strand, within LU632_RS03910 at 785.695 kb on + strand, within LU632_RS03910 at 785.695 kb on + strand, within LU632_RS03910 at 785.695 kb on + strand, within LU632_RS03910 at 785.695 kb on + strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.696 kb on - strand, within LU632_RS03910 at 785.786 kb on - strand, within LU632_RS03910 at 785.909 kb on - strand, within LU632_RS03910 at 785.915 kb on - strand, within LU632_RS03910 at 785.915 kb on - strand, within LU632_RS03910 at 785.915 kb on - strand, within LU632_RS03910 at 786.229 kb on + strand, within LU632_RS03910 at 786.229 kb on + strand, within LU632_RS03910 at 786.230 kb on - strand, within LU632_RS03910 at 786.349 kb on + strand, within LU632_RS03910 at 786.350 kb on - strand, within LU632_RS03910 at 786.350 kb on - strand, within LU632_RS03910 at 786.350 kb on - strand, within LU632_RS03910 at 786.372 kb on + strand, within LU632_RS03910 at 786.372 kb on + strand, within LU632_RS03910 at 786.373 kb on - strand, within LU632_RS03910 at 786.385 kb on - strand, within LU632_RS03910 at 786.562 kb on + strand, within LU632_RS03910 at 786.568 kb on + strand, within LU632_RS03910 at 786.569 kb on - strand, within LU632_RS03910 at 786.622 kb on + strand, within LU632_RS03910 at 786.622 kb on + strand, within LU632_RS03910 at 786.729 kb on + strand, within LU632_RS03910 at 786.730 kb on - strand, within LU632_RS03910 at 786.730 kb on - strand, within LU632_RS03910 at 786.730 kb on - strand, within LU632_RS03910 at 786.861 kb on + strand, within LU632_RS03910 at 786.862 kb on - strand, within LU632_RS03910 at 787.348 kb on + strand, within LU632_RS03910 at 787.348 kb on + strand, within LU632_RS03910 at 787.414 kb on + strand, within LU632_RS03910 at 787.447 kb on - strand, within LU632_RS03910 at 787.447 kb on - strand, within LU632_RS03910 at 787.556 kb on - strand at 787.630 kb on + strand at 787.819 kb on + strand at 787.819 kb on + strand at 787.821 kb on + strand at 787.821 kb on + strand at 787.822 kb on - strand at 787.837 kb on + strand at 787.838 kb on - strand at 787.859 kb on - strand at 787.903 kb on - strand at 787.903 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction plant=Squash; plant sample=QP3; plant location=NA remove 782,954 - vgrG LU632_RS03900 0.78 -0.2 783,093 - vgrG LU632_RS03900 0.86 -0.8 783,271 + +0.0 783,347 - -0.1 783,520 + LU632_RS03905 0.35 +0.5 783,521 - LU632_RS03905 0.36 -0.8 783,895 + -0.8 783,908 + -0.2 783,966 - -0.6 784,105 - +0.2 784,105 - +0.2 784,324 + LU632_RS03910 0.13 +0.2 784,337 + LU632_RS03910 0.13 -0.1 784,338 - LU632_RS03910 0.13 -0.6 784,401 + LU632_RS03910 0.15 -0.3 784,404 + LU632_RS03910 0.15 +0.1 784,405 - LU632_RS03910 0.15 -0.6 784,892 - LU632_RS03910 0.27 -0.3 785,086 + LU632_RS03910 0.31 +0.5 785,112 + LU632_RS03910 0.32 +0.1 785,252 + LU632_RS03910 0.35 -0.5 785,290 + LU632_RS03910 0.36 -0.6 785,321 + LU632_RS03910 0.37 -0.3 785,368 + LU632_RS03910 0.38 +0.8 785,368 + LU632_RS03910 0.38 -0.4 785,369 - LU632_RS03910 0.38 +0.9 785,494 + LU632_RS03910 0.41 -0.3 785,622 - LU632_RS03910 0.44 -0.8 785,695 + LU632_RS03910 0.46 -1.1 785,695 + LU632_RS03910 0.46 +2.3 785,695 + LU632_RS03910 0.46 +0.5 785,695 + LU632_RS03910 0.46 -1.6 785,695 + LU632_RS03910 0.46 -0.1 785,695 + LU632_RS03910 0.46 -1.5 785,695 + LU632_RS03910 0.46 -3.1 785,696 - LU632_RS03910 0.46 -0.4 785,696 - LU632_RS03910 0.46 +1.5 785,696 - LU632_RS03910 0.46 +0.7 785,696 - LU632_RS03910 0.46 +1.0 785,696 - LU632_RS03910 0.46 -0.6 785,696 - LU632_RS03910 0.46 -0.6 785,696 - LU632_RS03910 0.46 -0.8 785,696 - LU632_RS03910 0.46 +0.1 785,696 - LU632_RS03910 0.46 +0.5 785,696 - LU632_RS03910 0.46 +1.0 785,696 - LU632_RS03910 0.46 -0.1 785,696 - LU632_RS03910 0.46 -1.0 785,696 - LU632_RS03910 0.46 +1.4 785,696 - LU632_RS03910 0.46 -0.9 785,696 - LU632_RS03910 0.46 +0.4 785,696 - LU632_RS03910 0.46 -0.2 785,786 - LU632_RS03910 0.48 -0.2 785,909 - LU632_RS03910 0.51 -0.0 785,915 - LU632_RS03910 0.52 -0.2 785,915 - LU632_RS03910 0.52 -0.2 785,915 - LU632_RS03910 0.52 -1.0 786,229 + LU632_RS03910 0.59 -0.2 786,229 + LU632_RS03910 0.59 -2.3 786,230 - LU632_RS03910 0.59 -0.5 786,349 + LU632_RS03910 0.62 -2.0 786,350 - LU632_RS03910 0.62 -0.8 786,350 - LU632_RS03910 0.62 +0.3 786,350 - LU632_RS03910 0.62 -0.2 786,372 + LU632_RS03910 0.63 -1.0 786,372 + LU632_RS03910 0.63 +0.1 786,373 - LU632_RS03910 0.63 -0.3 786,385 - LU632_RS03910 0.63 -2.4 786,562 + LU632_RS03910 0.67 -0.7 786,568 + LU632_RS03910 0.68 +1.8 786,569 - LU632_RS03910 0.68 -0.7 786,622 + LU632_RS03910 0.69 -0.5 786,622 + LU632_RS03910 0.69 -0.2 786,729 + LU632_RS03910 0.71 -0.8 786,730 - LU632_RS03910 0.72 +1.5 786,730 - LU632_RS03910 0.72 -1.1 786,730 - LU632_RS03910 0.72 +0.2 786,861 + LU632_RS03910 0.75 -1.5 786,862 - LU632_RS03910 0.75 +0.3 787,348 + LU632_RS03910 0.87 -0.2 787,348 + LU632_RS03910 0.87 +2.5 787,414 + LU632_RS03910 0.88 -0.7 787,447 - LU632_RS03910 0.89 -1.3 787,447 - LU632_RS03910 0.89 +0.1 787,556 - +0.2 787,630 + -0.0 787,819 + +1.5 787,819 + +0.2 787,821 + -0.3 787,821 + +0.1 787,822 - +1.8 787,837 + +0.2 787,838 - -0.8 787,859 - -0.7 787,903 - +0.5 787,903 - -0.8
Or see this region's nucleotide sequence