Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03500

Experiment: D-Galactose 20 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_RS03510 and HMPREF1058_RS03505 are separated by 1 nucleotidesHMPREF1058_RS03505 and HMPREF1058_RS03500 are separated by 115 nucleotidesHMPREF1058_RS03500 and HMPREF1058_RS03495 are separated by 10 nucleotidesHMPREF1058_RS03495 and HMPREF1058_RS03490 are separated by 11 nucleotides HMPREF1058_RS03510: HMPREF1058_RS03510 - YebC/PmpR family DNA-binding transcriptional regulator, at 265,277 to 266,017 _RS03510 HMPREF1058_RS03505: HMPREF1058_RS03505 - TIGR03905 family TSCPD domain-containing protein, at 266,019 to 266,264 _RS03505 HMPREF1058_RS03500: HMPREF1058_RS03500 - DEAD/DEAH box helicase, at 266,380 to 268,743 _RS03500 HMPREF1058_RS03495: HMPREF1058_RS03495 - YjbH domain-containing protein, at 268,754 to 269,563 _RS03495 HMPREF1058_RS03490: HMPREF1058_RS03490 - glycosyltransferase family 4 protein, at 269,575 to 270,663 _RS03490 Position (kb) 266 267 268 269Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 265.432 kb on + strand, within HMPREF1058_RS03510at 265.433 kb on - strand, within HMPREF1058_RS03510at 265.438 kb on + strand, within HMPREF1058_RS03510at 265.438 kb on + strand, within HMPREF1058_RS03510at 265.527 kb on - strand, within HMPREF1058_RS03510at 265.558 kb on - strand, within HMPREF1058_RS03510at 265.643 kb on - strand, within HMPREF1058_RS03510at 265.676 kb on - strand, within HMPREF1058_RS03510at 265.747 kb on + strand, within HMPREF1058_RS03510at 265.748 kb on - strand, within HMPREF1058_RS03510at 265.753 kb on - strand, within HMPREF1058_RS03510at 265.790 kb on - strand, within HMPREF1058_RS03510at 265.800 kb on - strand, within HMPREF1058_RS03510at 265.817 kb on + strand, within HMPREF1058_RS03510at 265.880 kb on + strand, within HMPREF1058_RS03510at 265.880 kb on + strand, within HMPREF1058_RS03510at 265.881 kb on - strand, within HMPREF1058_RS03510at 265.982 kb on - strandat 265.982 kb on - strandat 266.034 kb on - strandat 266.074 kb on + strand, within HMPREF1058_RS03505at 266.128 kb on + strand, within HMPREF1058_RS03505at 266.128 kb on + strand, within HMPREF1058_RS03505at 266.135 kb on + strand, within HMPREF1058_RS03505at 266.233 kb on + strand, within HMPREF1058_RS03505at 266.233 kb on + strand, within HMPREF1058_RS03505at 266.262 kb on + strandat 266.286 kb on + strandat 266.322 kb on - strandat 266.323 kb on + strandat 266.323 kb on + strandat 266.323 kb on + strandat 266.324 kb on - strandat 266.324 kb on - strandat 266.326 kb on + strandat 266.326 kb on + strandat 266.326 kb on + strandat 266.327 kb on - strandat 266.557 kb on - strandat 267.322 kb on - strand, within HMPREF1058_RS03500at 267.537 kb on + strand, within HMPREF1058_RS03500at 267.709 kb on - strand, within HMPREF1058_RS03500at 267.934 kb on + strand, within HMPREF1058_RS03500at 267.934 kb on + strand, within HMPREF1058_RS03500at 267.934 kb on + strand, within HMPREF1058_RS03500at 267.934 kb on + strand, within HMPREF1058_RS03500at 267.945 kb on - strand, within HMPREF1058_RS03500at 267.945 kb on - strand, within HMPREF1058_RS03500at 267.973 kb on - strand, within HMPREF1058_RS03500at 268.011 kb on - strand, within HMPREF1058_RS03500at 268.039 kb on - strand, within HMPREF1058_RS03500at 268.384 kb on - strand, within HMPREF1058_RS03500at 268.449 kb on + strand, within HMPREF1058_RS03500at 268.655 kb on - strandat 268.743 kb on + strandat 268.798 kb on + strandat 268.798 kb on + strandat 268.828 kb on + strandat 268.828 kb on + strandat 268.831 kb on - strandat 268.848 kb on + strand, within HMPREF1058_RS03495at 268.876 kb on + strand, within HMPREF1058_RS03495at 268.999 kb on + strand, within HMPREF1058_RS03495at 269.067 kb on - strand, within HMPREF1058_RS03495at 269.070 kb on + strand, within HMPREF1058_RS03495at 269.071 kb on - strand, within HMPREF1058_RS03495at 269.114 kb on - strand, within HMPREF1058_RS03495at 269.268 kb on + strand, within HMPREF1058_RS03495at 269.294 kb on + strand, within HMPREF1058_RS03495at 269.351 kb on + strand, within HMPREF1058_RS03495at 269.351 kb on + strand, within HMPREF1058_RS03495at 269.356 kb on - strand, within HMPREF1058_RS03495at 269.358 kb on + strandat 269.486 kb on + strandat 269.486 kb on + strandat 269.486 kb on + strandat 269.487 kb on - strandat 269.487 kb on - strandat 269.487 kb on - strandat 269.487 kb on - strandat 269.487 kb on - strandat 269.490 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction D-Galactose 20 mM (C)
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265,432 + HMPREF1058_RS03510 0.21 -4.5
265,433 - HMPREF1058_RS03510 0.21 -1.1
265,438 + HMPREF1058_RS03510 0.22 -1.8
265,438 + HMPREF1058_RS03510 0.22 -1.0
265,527 - HMPREF1058_RS03510 0.34 -1.5
265,558 - HMPREF1058_RS03510 0.38 -3.3
265,643 - HMPREF1058_RS03510 0.49 -1.8
265,676 - HMPREF1058_RS03510 0.54 -0.5
265,747 + HMPREF1058_RS03510 0.63 -1.0
265,748 - HMPREF1058_RS03510 0.64 -2.0
265,753 - HMPREF1058_RS03510 0.64 -2.9
265,790 - HMPREF1058_RS03510 0.69 -2.9
265,800 - HMPREF1058_RS03510 0.71 -1.2
265,817 + HMPREF1058_RS03510 0.73 -3.3
265,880 + HMPREF1058_RS03510 0.81 +0.0
265,880 + HMPREF1058_RS03510 0.81 -1.7
265,881 - HMPREF1058_RS03510 0.82 -1.5
265,982 - -2.6
265,982 - -3.0
266,034 - +2.3
266,074 + HMPREF1058_RS03505 0.22 +0.1
266,128 + HMPREF1058_RS03505 0.44 -0.4
266,128 + HMPREF1058_RS03505 0.44 -0.8
266,135 + HMPREF1058_RS03505 0.47 -1.6
266,233 + HMPREF1058_RS03505 0.87 +1.8
266,233 + HMPREF1058_RS03505 0.87 +0.5
266,262 + +0.8
266,286 + -0.7
266,322 - +1.2
266,323 + -2.1
266,323 + +1.6
266,323 + +0.0
266,324 - +0.3
266,324 - +0.7
266,326 + +0.4
266,326 + -3.0
266,326 + -0.3
266,327 - +2.0
266,557 - -3.0
267,322 - HMPREF1058_RS03500 0.40 +1.0
267,537 + HMPREF1058_RS03500 0.49 +1.1
267,709 - HMPREF1058_RS03500 0.56 +0.1
267,934 + HMPREF1058_RS03500 0.66 -1.3
267,934 + HMPREF1058_RS03500 0.66 -1.8
267,934 + HMPREF1058_RS03500 0.66 -0.6
267,934 + HMPREF1058_RS03500 0.66 -2.3
267,945 - HMPREF1058_RS03500 0.66 -0.6
267,945 - HMPREF1058_RS03500 0.66 -1.1
267,973 - HMPREF1058_RS03500 0.67 -1.2
268,011 - HMPREF1058_RS03500 0.69 -3.0
268,039 - HMPREF1058_RS03500 0.70 -0.8
268,384 - HMPREF1058_RS03500 0.85 +0.4
268,449 + HMPREF1058_RS03500 0.88 +0.1
268,655 - +2.5
268,743 + -1.9
268,798 + -0.2
268,798 + -0.6
268,828 + -0.6
268,828 + +0.0
268,831 - +0.8
268,848 + HMPREF1058_RS03495 0.12 -2.6
268,876 + HMPREF1058_RS03495 0.15 -0.7
268,999 + HMPREF1058_RS03495 0.30 +0.4
269,067 - HMPREF1058_RS03495 0.39 -0.2
269,070 + HMPREF1058_RS03495 0.39 +1.1
269,071 - HMPREF1058_RS03495 0.39 -1.2
269,114 - HMPREF1058_RS03495 0.44 +1.9
269,268 + HMPREF1058_RS03495 0.63 -1.2
269,294 + HMPREF1058_RS03495 0.67 -1.0
269,351 + HMPREF1058_RS03495 0.74 +0.4
269,351 + HMPREF1058_RS03495 0.74 +0.4
269,356 - HMPREF1058_RS03495 0.74 +1.2
269,358 + -0.2
269,486 + -0.4
269,486 + -0.7
269,486 + +0.2
269,487 - +1.0
269,487 - +0.0
269,487 - -0.6
269,487 - +2.9
269,487 - +0.4
269,490 + -0.8

Or see this region's nucleotide sequence