Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS00595

Experiment: pectate 2.5 mg/ml (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_RS00600 and HMPREF1058_RS00595 are separated by 175 nucleotidesHMPREF1058_RS00595 and HMPREF1058_RS00590 are separated by 87 nucleotides HMPREF1058_RS00600: HMPREF1058_RS00600 - diaminopimelate dehydrogenase, at 37,881 to 38,780 _RS00600 HMPREF1058_RS00595: HMPREF1058_RS00595 - Holliday junction branch migration protein RuvA, at 38,956 to 39,549 _RS00595 HMPREF1058_RS00590: HMPREF1058_RS00590 - hypothetical protein, at 39,637 to 40,461 _RS00590 Position (kb) 38 39 40Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 38.024 kb on + strand, within HMPREF1058_RS00600at 38.028 kb on - strand, within HMPREF1058_RS00600at 38.161 kb on - strand, within HMPREF1058_RS00600at 38.230 kb on + strand, within HMPREF1058_RS00600at 38.231 kb on - strand, within HMPREF1058_RS00600at 38.231 kb on - strand, within HMPREF1058_RS00600at 38.231 kb on - strand, within HMPREF1058_RS00600at 38.231 kb on - strand, within HMPREF1058_RS00600at 38.353 kb on + strand, within HMPREF1058_RS00600at 38.353 kb on + strand, within HMPREF1058_RS00600at 38.354 kb on - strand, within HMPREF1058_RS00600at 38.357 kb on + strand, within HMPREF1058_RS00600at 38.358 kb on - strandat 38.358 kb on - strand, within HMPREF1058_RS00600at 38.358 kb on - strand, within HMPREF1058_RS00600at 38.358 kb on - strand, within HMPREF1058_RS00600at 38.358 kb on - strand, within HMPREF1058_RS00600at 38.358 kb on - strand, within HMPREF1058_RS00600at 38.435 kb on + strand, within HMPREF1058_RS00600at 38.514 kb on - strand, within HMPREF1058_RS00600at 38.514 kb on - strand, within HMPREF1058_RS00600at 38.518 kb on - strand, within HMPREF1058_RS00600at 38.616 kb on + strand, within HMPREF1058_RS00600at 38.618 kb on + strand, within HMPREF1058_RS00600at 38.619 kb on - strand, within HMPREF1058_RS00600at 38.728 kb on - strandat 38.893 kb on + strandat 38.960 kb on + strandat 39.054 kb on + strand, within HMPREF1058_RS00595at 39.085 kb on - strand, within HMPREF1058_RS00595at 39.096 kb on + strand, within HMPREF1058_RS00595at 39.124 kb on + strand, within HMPREF1058_RS00595at 39.128 kb on + strand, within HMPREF1058_RS00595at 39.129 kb on - strand, within HMPREF1058_RS00595at 39.326 kb on + strand, within HMPREF1058_RS00595at 39.327 kb on - strand, within HMPREF1058_RS00595at 39.548 kb on - strandat 39.548 kb on - strandat 39.556 kb on + strandat 39.557 kb on - strandat 39.638 kb on + strandat 39.639 kb on - strandat 39.639 kb on - strandat 39.705 kb on + strandat 39.801 kb on - strand, within HMPREF1058_RS00590at 39.855 kb on + strand, within HMPREF1058_RS00590at 40.024 kb on - strand, within HMPREF1058_RS00590at 40.029 kb on + strand, within HMPREF1058_RS00590at 40.115 kb on + strand, within HMPREF1058_RS00590at 40.120 kb on - strand, within HMPREF1058_RS00590at 40.133 kb on + strand, within HMPREF1058_RS00590at 40.134 kb on - strand, within HMPREF1058_RS00590at 40.318 kb on + strand, within HMPREF1058_RS00590at 40.442 kb on - strandat 40.444 kb on + strandat 40.444 kb on + strandat 40.464 kb on - strandat 40.476 kb on + strandat 40.476 kb on + strandat 40.476 kb on + strandat 40.477 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction pectate 2.5 mg/ml (C)
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38,024 + HMPREF1058_RS00600 0.16 +0.1
38,028 - HMPREF1058_RS00600 0.16 -0.8
38,161 - HMPREF1058_RS00600 0.31 -0.3
38,230 + HMPREF1058_RS00600 0.39 +0.2
38,231 - HMPREF1058_RS00600 0.39 -1.1
38,231 - HMPREF1058_RS00600 0.39 -0.8
38,231 - HMPREF1058_RS00600 0.39 -0.8
38,231 - HMPREF1058_RS00600 0.39 +0.2
38,353 + HMPREF1058_RS00600 0.52 -0.4
38,353 + HMPREF1058_RS00600 0.52 +3.1
38,354 - HMPREF1058_RS00600 0.53 +0.1
38,357 + HMPREF1058_RS00600 0.53 -0.1
38,358 - +0.4
38,358 - HMPREF1058_RS00600 0.53 -0.1
38,358 - HMPREF1058_RS00600 0.53 -0.8
38,358 - HMPREF1058_RS00600 0.53 -1.6
38,358 - HMPREF1058_RS00600 0.53 +0.3
38,358 - HMPREF1058_RS00600 0.53 +0.2
38,435 + HMPREF1058_RS00600 0.62 -1.0
38,514 - HMPREF1058_RS00600 0.70 +1.0
38,514 - HMPREF1058_RS00600 0.70 -0.2
38,518 - HMPREF1058_RS00600 0.71 +0.3
38,616 + HMPREF1058_RS00600 0.82 +0.3
38,618 + HMPREF1058_RS00600 0.82 -1.2
38,619 - HMPREF1058_RS00600 0.82 -0.1
38,728 - -0.1
38,893 + -1.0
38,960 + -0.2
39,054 + HMPREF1058_RS00595 0.16 +0.6
39,085 - HMPREF1058_RS00595 0.22 -0.1
39,096 + HMPREF1058_RS00595 0.24 -0.3
39,124 + HMPREF1058_RS00595 0.28 -0.6
39,128 + HMPREF1058_RS00595 0.29 -0.2
39,129 - HMPREF1058_RS00595 0.29 -2.0
39,326 + HMPREF1058_RS00595 0.62 -1.2
39,327 - HMPREF1058_RS00595 0.62 -2.6
39,548 - +2.4
39,548 - -0.2
39,556 + -0.1
39,557 - +0.1
39,638 + -0.2
39,639 - +0.4
39,639 - -0.2
39,705 + -0.6
39,801 - HMPREF1058_RS00590 0.20 -1.6
39,855 + HMPREF1058_RS00590 0.26 +2.0
40,024 - HMPREF1058_RS00590 0.47 -2.5
40,029 + HMPREF1058_RS00590 0.48 -0.6
40,115 + HMPREF1058_RS00590 0.58 -0.4
40,120 - HMPREF1058_RS00590 0.59 -1.3
40,133 + HMPREF1058_RS00590 0.60 -3.2
40,134 - HMPREF1058_RS00590 0.60 -1.7
40,318 + HMPREF1058_RS00590 0.83 -0.0
40,442 - -2.1
40,444 + -0.6
40,444 + -0.5
40,464 - -0.7
40,476 + -0.7
40,476 + -1.7
40,476 + -1.7
40,477 - +1.5

Or see this region's nucleotide sequence