Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS05675

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day1

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntHMPREF1058_RS20935 and HMPREF1058_RS05675 are separated by 137 nucleotidesHMPREF1058_RS05675 and HMPREF1058_RS05670 are separated by 109 nucleotidesHMPREF1058_RS05670 and HMPREF1058_RS05665 are separated by 11 nucleotides HMPREF1058_RS20935: HMPREF1058_RS20935 - helix-turn-helix domain-containing protein, at 104,512 to 105,448 _RS20935 HMPREF1058_RS05675: HMPREF1058_RS05675 - site-specific integrase, at 105,586 to 106,458 _RS05675 HMPREF1058_RS05670: HMPREF1058_RS05670 - IS21-like element helper ATPase IstB, at 106,568 to 107,353 _RS05670 HMPREF1058_RS05665: HMPREF1058_RS05665 - IS21 family transposase, at 107,365 to 108,930 _RS05665 Position (kb) 105 106 107Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 104.670 kb on - strand, within HMPREF1058_RS20935at 104.683 kb on + strand, within HMPREF1058_RS20935at 104.708 kb on + strand, within HMPREF1058_RS20935at 104.731 kb on + strand, within HMPREF1058_RS20935at 104.732 kb on - strand, within HMPREF1058_RS20935at 104.737 kb on + strand, within HMPREF1058_RS20935at 104.775 kb on + strand, within HMPREF1058_RS20935at 104.775 kb on + strand, within HMPREF1058_RS20935at 104.933 kb on + strand, within HMPREF1058_RS20935at 105.002 kb on + strand, within HMPREF1058_RS20935at 105.059 kb on + strand, within HMPREF1058_RS20935at 105.099 kb on + strand, within HMPREF1058_RS20935at 105.100 kb on - strand, within HMPREF1058_RS20935at 105.100 kb on - strand, within HMPREF1058_RS20935at 105.100 kb on - strand, within HMPREF1058_RS20935at 105.104 kb on - strand, within HMPREF1058_RS20935at 105.230 kb on + strand, within HMPREF1058_RS20935at 105.230 kb on + strand, within HMPREF1058_RS20935at 105.231 kb on - strand, within HMPREF1058_RS20935at 105.231 kb on - strand, within HMPREF1058_RS20935at 105.385 kb on - strandat 105.478 kb on - strandat 105.478 kb on - strandat 105.502 kb on + strandat 105.627 kb on + strandat 105.651 kb on - strandat 105.688 kb on - strand, within HMPREF1058_RS05675at 105.795 kb on - strand, within HMPREF1058_RS05675at 105.804 kb on + strand, within HMPREF1058_RS05675at 105.805 kb on - strand, within HMPREF1058_RS05675at 105.928 kb on + strand, within HMPREF1058_RS05675at 105.951 kb on - strand, within HMPREF1058_RS05675at 106.009 kb on + strand, within HMPREF1058_RS05675at 106.010 kb on - strand, within HMPREF1058_RS05675at 106.056 kb on + strand, within HMPREF1058_RS05675at 106.327 kb on + strand, within HMPREF1058_RS05675at 106.327 kb on + strand, within HMPREF1058_RS05675

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day1
remove
104,670 - HMPREF1058_RS20935 0.17 +0.2
104,683 + HMPREF1058_RS20935 0.18 +1.7
104,708 + HMPREF1058_RS20935 0.21 +0.7
104,731 + HMPREF1058_RS20935 0.23 -0.0
104,732 - HMPREF1058_RS20935 0.23 -2.9
104,737 + HMPREF1058_RS20935 0.24 -0.8
104,775 + HMPREF1058_RS20935 0.28 +4.2
104,775 + HMPREF1058_RS20935 0.28 +1.8
104,933 + HMPREF1058_RS20935 0.45 +0.9
105,002 + HMPREF1058_RS20935 0.52 +0.6
105,059 + HMPREF1058_RS20935 0.58 +1.1
105,099 + HMPREF1058_RS20935 0.63 -1.5
105,100 - HMPREF1058_RS20935 0.63 +0.7
105,100 - HMPREF1058_RS20935 0.63 +1.1
105,100 - HMPREF1058_RS20935 0.63 -2.6
105,104 - HMPREF1058_RS20935 0.63 +1.1
105,230 + HMPREF1058_RS20935 0.77 +2.0
105,230 + HMPREF1058_RS20935 0.77 +0.1
105,231 - HMPREF1058_RS20935 0.77 +1.8
105,231 - HMPREF1058_RS20935 0.77 -0.2
105,385 - -1.8
105,478 - +2.0
105,478 - +1.1
105,502 + -2.1
105,627 + -0.8
105,651 - -2.8
105,688 - HMPREF1058_RS05675 0.12 -1.3
105,795 - HMPREF1058_RS05675 0.24 +3.5
105,804 + HMPREF1058_RS05675 0.25 -0.8
105,805 - HMPREF1058_RS05675 0.25 -2.9
105,928 + HMPREF1058_RS05675 0.39 -0.8
105,951 - HMPREF1058_RS05675 0.42 -2.1
106,009 + HMPREF1058_RS05675 0.48 -0.0
106,010 - HMPREF1058_RS05675 0.49 +3.0
106,056 + HMPREF1058_RS05675 0.54 -0.8
106,327 + HMPREF1058_RS05675 0.85 -3.8
106,327 + HMPREF1058_RS05675 0.85 +1.9

Or see this region's nucleotide sequence