Strain Fitness in Erwinia tracheiphila SCR3 around LU632_RS00405

Experiment: plant=Squash; plant sample=QP1; 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_RS00400 and LU632_RS00405 are separated by 132 nucleotidesLU632_RS00405 and LU632_RS00410 are separated by 121 nucleotidesLU632_RS00410 and LU632_RS00415 overlap by 20 nucleotides LU632_RS00400: LU632_RS00400 - hypothetical protein, at 84,706 to 85,437 _RS00400 LU632_RS00405: LU632_RS00405 - IS5 family transposase, at 85,570 to 86,375 _RS00405 LU632_RS00410: LU632_RS00410 - hypothetical protein, at 86,497 to 86,919 _RS00410 LU632_RS00415: LU632_RS00415 - type III secretion protein, at 86,900 to 87,634 _RS00415 Position (kb) 85 86 87Strain fitness (log2 ratio) -1 0 1 2at 84.603 kb on + strandat 84.605 kb on + strandat 84.680 kb on - strandat 84.900 kb on + strand, within LU632_RS00400at 85.510 kb on + strandat 86.503 kb on + strandat 86.569 kb on + strand, within LU632_RS00410at 86.586 kb on + strand, within LU632_RS00410at 86.591 kb on + strand, within LU632_RS00410at 86.616 kb on - strand, within LU632_RS00410

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Per-strain Table

Position Strand Gene LocusTag Fraction plant=Squash; plant sample=QP1; plant location=NA
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84,603 + +0.2
84,605 + -0.5
84,680 - +0.2
84,900 + LU632_RS00400 0.27 -0.7
85,510 + -0.9
86,503 + +2.5
86,569 + LU632_RS00410 0.17 +0.5
86,586 + LU632_RS00410 0.21 -0.1
86,591 + LU632_RS00410 0.22 -0.3
86,616 - LU632_RS00410 0.28 -0.3

Or see this region's nucleotide sequence