Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04350

Experiment: Beta-Lactose 10 mM (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 ntHMPREF1058_RS04355 and HMPREF1058_RS04350 are separated by 111 nucleotidesHMPREF1058_RS04350 and HMPREF1058_RS0119935 are separated by 349 nucleotides HMPREF1058_RS04355: HMPREF1058_RS04355 - sodium:proton antiporter, at 56,234 to 57,685 _RS04355 HMPREF1058_RS04350: HMPREF1058_RS04350 - C1 family peptidase, at 57,797 to 59,173 _RS04350 HMPREF1058_RS0119935: HMPREF1058_RS0119935 - Rpn family recombination-promoting nuclease/putative transposase, at 59,523 to 60,383 _RS0119935 Position (kb) 57 58 59 60Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 56.941 kb on + strand, within HMPREF1058_RS04355at 56.950 kb on + strand, within HMPREF1058_RS04355at 57.005 kb on - strand, within HMPREF1058_RS04355at 57.027 kb on + strand, within HMPREF1058_RS04355at 57.028 kb on - strand, within HMPREF1058_RS04355at 57.028 kb on - strand, within HMPREF1058_RS04355at 57.037 kb on + strand, within HMPREF1058_RS04355at 57.085 kb on - strand, within HMPREF1058_RS04355at 57.312 kb on + strand, within HMPREF1058_RS04355at 57.313 kb on - strandat 57.313 kb on - strand, within HMPREF1058_RS04355at 57.404 kb on - strand, within HMPREF1058_RS04355at 57.443 kb on + strand, within HMPREF1058_RS04355at 57.444 kb on - strand, within HMPREF1058_RS04355at 57.530 kb on - strand, within HMPREF1058_RS04355at 57.579 kb on - strandat 57.579 kb on - strandat 57.637 kb on - strandat 57.646 kb on + strandat 57.647 kb on - strandat 57.647 kb on - strandat 57.647 kb on - strandat 57.706 kb on + strandat 57.706 kb on + strandat 57.708 kb on + strandat 57.708 kb on + strandat 57.708 kb on + strandat 57.710 kb on + strandat 57.902 kb on + strandat 57.903 kb on - strandat 57.955 kb on + strand, within HMPREF1058_RS04350at 58.023 kb on + strand, within HMPREF1058_RS04350at 58.297 kb on + strand, within HMPREF1058_RS04350at 58.493 kb on - strand, within HMPREF1058_RS04350at 58.493 kb on - strand, within HMPREF1058_RS04350at 58.493 kb on - strand, within HMPREF1058_RS04350at 58.583 kb on + strand, within HMPREF1058_RS04350at 58.620 kb on - strand, within HMPREF1058_RS04350at 58.620 kb on - strand, within HMPREF1058_RS04350at 58.623 kb on + strand, within HMPREF1058_RS04350at 58.624 kb on - strand, within HMPREF1058_RS04350at 58.692 kb on - strand, within HMPREF1058_RS04350at 58.746 kb on + strand, within HMPREF1058_RS04350at 58.747 kb on - strand, within HMPREF1058_RS04350at 58.753 kb on - strand, within HMPREF1058_RS04350at 58.798 kb on - strand, within HMPREF1058_RS04350at 59.030 kb on - strand, within HMPREF1058_RS04350at 59.041 kb on + strandat 59.057 kb on + strandat 59.057 kb on + strandat 59.058 kb on - strandat 59.059 kb on + strandat 59.059 kb on + strandat 59.060 kb on - strandat 59.060 kb on - strandat 59.088 kb on - strandat 59.088 kb on - strandat 59.116 kb on - strandat 59.172 kb on - strandat 59.193 kb on + strandat 59.193 kb on + strandat 59.232 kb on - strandat 59.315 kb on + strandat 59.316 kb on - strandat 59.342 kb on + strandat 59.342 kb on + strandat 59.343 kb on - strandat 59.343 kb on - strandat 59.344 kb on + strandat 59.374 kb on + strandat 59.375 kb on - strandat 59.378 kb on + strandat 59.382 kb on + strandat 59.522 kb on + strandat 59.523 kb on - strandat 59.709 kb on + strand, within HMPREF1058_RS0119935at 59.726 kb on + strand, within HMPREF1058_RS0119935at 59.742 kb on - strand, within HMPREF1058_RS0119935at 59.801 kb on + strand, within HMPREF1058_RS0119935at 59.802 kb on - strand, within HMPREF1058_RS0119935at 59.853 kb on + strand, within HMPREF1058_RS0119935at 59.854 kb on - strand, within HMPREF1058_RS0119935at 59.854 kb on - strand, within HMPREF1058_RS0119935at 59.854 kb on - strand, within HMPREF1058_RS0119935at 59.854 kb on - strand, within HMPREF1058_RS0119935at 60.053 kb on + strand, within HMPREF1058_RS0119935at 60.053 kb on + strand, within HMPREF1058_RS0119935

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Per-strain Table

Position Strand Gene LocusTag Fraction Beta-Lactose 10 mM (C)
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56,941 + HMPREF1058_RS04355 0.49 +0.2
56,950 + HMPREF1058_RS04355 0.49 -1.1
57,005 - HMPREF1058_RS04355 0.53 -1.3
57,027 + HMPREF1058_RS04355 0.55 -1.0
57,028 - HMPREF1058_RS04355 0.55 -0.5
57,028 - HMPREF1058_RS04355 0.55 +0.5
57,037 + HMPREF1058_RS04355 0.55 +0.1
57,085 - HMPREF1058_RS04355 0.59 +2.0
57,312 + HMPREF1058_RS04355 0.74 -1.5
57,313 - +0.0
57,313 - HMPREF1058_RS04355 0.74 +1.1
57,404 - HMPREF1058_RS04355 0.81 +1.8
57,443 + HMPREF1058_RS04355 0.83 -2.7
57,444 - HMPREF1058_RS04355 0.83 -0.3
57,530 - HMPREF1058_RS04355 0.89 +1.1
57,579 - +0.4
57,579 - +1.8
57,637 - +1.4
57,646 + -3.1
57,647 - +1.5
57,647 - -0.5
57,647 - +2.7
57,706 + -2.7
57,706 + -0.8
57,708 + -2.6
57,708 + +0.8
57,708 + -1.1
57,710 + -1.9
57,902 + +2.8
57,903 - +1.2
57,955 + HMPREF1058_RS04350 0.11 +1.3
58,023 + HMPREF1058_RS04350 0.16 +1.8
58,297 + HMPREF1058_RS04350 0.36 +2.5
58,493 - HMPREF1058_RS04350 0.51 +1.6
58,493 - HMPREF1058_RS04350 0.51 -0.8
58,493 - HMPREF1058_RS04350 0.51 +2.8
58,583 + HMPREF1058_RS04350 0.57 +2.6
58,620 - HMPREF1058_RS04350 0.60 +1.7
58,620 - HMPREF1058_RS04350 0.60 +2.0
58,623 + HMPREF1058_RS04350 0.60 +2.7
58,624 - HMPREF1058_RS04350 0.60 +1.7
58,692 - HMPREF1058_RS04350 0.65 +2.4
58,746 + HMPREF1058_RS04350 0.69 +2.6
58,747 - HMPREF1058_RS04350 0.69 +1.7
58,753 - HMPREF1058_RS04350 0.69 +2.2
58,798 - HMPREF1058_RS04350 0.73 +2.2
59,030 - HMPREF1058_RS04350 0.90 +1.2
59,041 + +2.3
59,057 + +2.3
59,057 + +2.6
59,058 - +2.0
59,059 + +1.9
59,059 + +3.0
59,060 - +1.5
59,060 - +0.4
59,088 - +0.4
59,088 - +1.6
59,116 - +3.1
59,172 - +1.8
59,193 + +2.1
59,193 + +0.6
59,232 - +2.7
59,315 + -0.1
59,316 - +0.9
59,342 + +0.4
59,342 + -0.5
59,343 - -1.5
59,343 - -0.6
59,344 + -0.3
59,374 + +0.7
59,375 - -2.0
59,378 + +0.4
59,382 + +0.0
59,522 + +0.4
59,523 - -0.1
59,709 + HMPREF1058_RS0119935 0.22 +0.5
59,726 + HMPREF1058_RS0119935 0.24 -0.2
59,742 - HMPREF1058_RS0119935 0.25 +0.6
59,801 + HMPREF1058_RS0119935 0.32 +1.2
59,802 - HMPREF1058_RS0119935 0.32 -0.7
59,853 + HMPREF1058_RS0119935 0.38 +0.0
59,854 - HMPREF1058_RS0119935 0.38 +1.4
59,854 - HMPREF1058_RS0119935 0.38 -1.0
59,854 - HMPREF1058_RS0119935 0.38 -0.9
59,854 - HMPREF1058_RS0119935 0.38 -1.2
60,053 + HMPREF1058_RS0119935 0.62 -1.5
60,053 + HMPREF1058_RS0119935 0.62 +0.3

Or see this region's nucleotide sequence