Strain Fitness in Shewanella loihica PV-4 around Shew_0565

Experiment: Fumarate (C)

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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 ntShew_0564 and Shew_0565 overlap by 8 nucleotidesShew_0565 and Shew_0566 are separated by 92 nucleotidesShew_0566 and Shew_0567 are separated by 20 nucleotides Shew_0564: Shew_0564 - DNA mismatch repair protein MutL (RefSeq), at 639,265 to 641,160 _0564 Shew_0565: Shew_0565 - tRNA delta(2)-isopentenylpyrophosphate transferase (RefSeq), at 641,153 to 642,079 _0565 Shew_0566: Shew_0566 - RNA chaperone Hfq (RefSeq), at 642,172 to 642,450 _0566 Shew_0567: Shew_0567 - GTP-binding protein, HSR1-related (RefSeq), at 642,471 to 643,769 _0567 Position (kb) 641 642 643Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 640.178 kb on + strand, within Shew_0564at 640.186 kb on - strand, within Shew_0564at 640.225 kb on - strand, within Shew_0564at 640.519 kb on + strand, within Shew_0564at 640.586 kb on - strand, within Shew_0564at 640.643 kb on + strand, within Shew_0564at 640.699 kb on + strand, within Shew_0564at 641.242 kb on + strandat 641.590 kb on + strand, within Shew_0565at 641.717 kb on + strand, within Shew_0565at 641.768 kb on + strand, within Shew_0565at 641.768 kb on + strand, within Shew_0565at 641.987 kb on + strandat 642.371 kb on + strand, within Shew_0566at 642.499 kb on + strandat 642.504 kb on + strandat 642.538 kb on + strandat 642.839 kb on + strand, within Shew_0567

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Per-strain Table

Position Strand Gene LocusTag Fraction Fumarate (C)
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640,178 + Shew_0564 0.48 +1.1
640,186 - Shew_0564 0.49 +0.4
640,225 - Shew_0564 0.51 +1.1
640,519 + Shew_0564 0.66 +1.2
640,586 - Shew_0564 0.70 -1.3
640,643 + Shew_0564 0.73 +0.3
640,699 + Shew_0564 0.76 +0.5
641,242 + -4.3
641,590 + Shew_0565 0.47 -1.4
641,717 + Shew_0565 0.61 -1.0
641,768 + Shew_0565 0.66 -1.2
641,768 + Shew_0565 0.66 -2.2
641,987 + -1.4
642,371 + Shew_0566 0.71 -4.0
642,499 + -3.5
642,504 + +0.2
642,538 + -3.1
642,839 + Shew_0567 0.28 -0.5

Or see this region's nucleotide sequence