Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS05615

Experiment: Lacto-N-tetraose 10 mg/mL (C)

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_RS05625 and HMPREF1058_RS05620 overlap by 8 nucleotidesHMPREF1058_RS05620 and HMPREF1058_RS05615 overlap by 4 nucleotidesHMPREF1058_RS05615 and HMPREF1058_RS05610 are separated by 405 nucleotides HMPREF1058_RS05625: HMPREF1058_RS05625 - HipA domain-containing protein, at 117,559 to 118,500 _RS05625 HMPREF1058_RS05620: HMPREF1058_RS05620 - HipA N-terminal domain-containing protein, at 118,493 to 118,831 _RS05620 HMPREF1058_RS05615: HMPREF1058_RS05615 - helix-turn-helix transcriptional regulator, at 118,828 to 119,034 _RS05615 HMPREF1058_RS05610: HMPREF1058_RS05610 - DUF2971 domain-containing protein, at 119,440 to 120,447 _RS05610 Position (kb) 118 119 120Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 117.829 kb on + strand, within HMPREF1058_RS05625at 117.829 kb on + strand, within HMPREF1058_RS05625at 117.830 kb on - strand, within HMPREF1058_RS05625at 117.856 kb on + strand, within HMPREF1058_RS05625at 118.007 kb on + strand, within HMPREF1058_RS05625at 118.007 kb on + strand, within HMPREF1058_RS05625at 118.023 kb on + strandat 118.118 kb on - strand, within HMPREF1058_RS05625at 118.122 kb on + strand, within HMPREF1058_RS05625at 118.122 kb on + strand, within HMPREF1058_RS05625at 118.156 kb on + strand, within HMPREF1058_RS05625at 118.156 kb on + strand, within HMPREF1058_RS05625at 118.157 kb on - strand, within HMPREF1058_RS05625at 118.245 kb on + strand, within HMPREF1058_RS05625at 118.246 kb on - strand, within HMPREF1058_RS05625at 118.246 kb on - strand, within HMPREF1058_RS05625at 118.269 kb on + strand, within HMPREF1058_RS05625at 118.390 kb on - strand, within HMPREF1058_RS05625at 118.390 kb on - strand, within HMPREF1058_RS05625at 118.405 kb on + strand, within HMPREF1058_RS05625at 118.409 kb on - strandat 118.450 kb on - strandat 118.484 kb on + strandat 118.485 kb on - strandat 118.486 kb on + strandat 118.487 kb on - strandat 118.623 kb on - strand, within HMPREF1058_RS05620at 118.678 kb on + strand, within HMPREF1058_RS05620at 118.678 kb on + strand, within HMPREF1058_RS05620at 118.678 kb on + strand, within HMPREF1058_RS05620at 118.817 kb on - strandat 118.992 kb on - strand, within HMPREF1058_RS05615at 119.019 kb on + strandat 119.029 kb on - strandat 119.079 kb on + strandat 119.150 kb on - strandat 119.150 kb on - strandat 119.150 kb on - strandat 119.150 kb on - strandat 119.164 kb on - strandat 119.166 kb on - strandat 119.204 kb on + strandat 119.205 kb on - strandat 119.205 kb on - strandat 119.207 kb on - strandat 119.213 kb on + strandat 119.244 kb on + strandat 119.244 kb on + strandat 119.245 kb on - strandat 119.246 kb on + strandat 119.256 kb on - strandat 119.265 kb on + strandat 119.385 kb on - strandat 119.390 kb on + strandat 119.401 kb on - strandat 119.401 kb on - strandat 119.435 kb on + strandat 119.451 kb on + strandat 119.452 kb on - strandat 119.527 kb on + strandat 119.636 kb on + strand, within HMPREF1058_RS05610at 119.641 kb on + strand, within HMPREF1058_RS05610at 119.667 kb on + strand, within HMPREF1058_RS05610at 119.694 kb on - strand, within HMPREF1058_RS05610at 119.707 kb on + strand, within HMPREF1058_RS05610at 119.714 kb on + strand, within HMPREF1058_RS05610at 119.765 kb on + strand, within HMPREF1058_RS05610at 119.856 kb on + strand, within HMPREF1058_RS05610at 119.856 kb on + strand, within HMPREF1058_RS05610at 119.856 kb on + strand, within HMPREF1058_RS05610at 119.857 kb on - strand, within HMPREF1058_RS05610at 119.867 kb on + strand, within HMPREF1058_RS05610at 119.889 kb on - strand, within HMPREF1058_RS05610at 120.004 kb on - strand, within HMPREF1058_RS05610at 120.012 kb on + strand, within HMPREF1058_RS05610at 120.013 kb on - strand, within HMPREF1058_RS05610at 120.013 kb on - strand, within HMPREF1058_RS05610at 120.016 kb on + strand, within HMPREF1058_RS05610at 120.017 kb on - strand, within HMPREF1058_RS05610

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Lacto-N-tetraose 10 mg/mL (C)
remove
117,829 + HMPREF1058_RS05625 0.29 -0.7
117,829 + HMPREF1058_RS05625 0.29 -0.7
117,830 - HMPREF1058_RS05625 0.29 -0.3
117,856 + HMPREF1058_RS05625 0.32 -1.7
118,007 + HMPREF1058_RS05625 0.48 +0.1
118,007 + HMPREF1058_RS05625 0.48 +2.2
118,023 + +2.0
118,118 - HMPREF1058_RS05625 0.59 +0.3
118,122 + HMPREF1058_RS05625 0.60 -0.4
118,122 + HMPREF1058_RS05625 0.60 +0.6
118,156 + HMPREF1058_RS05625 0.63 -0.4
118,156 + HMPREF1058_RS05625 0.63 -0.6
118,157 - HMPREF1058_RS05625 0.63 -0.2
118,245 + HMPREF1058_RS05625 0.73 +0.3
118,246 - HMPREF1058_RS05625 0.73 -1.3
118,246 - HMPREF1058_RS05625 0.73 +1.8
118,269 + HMPREF1058_RS05625 0.75 +0.3
118,390 - HMPREF1058_RS05625 0.88 -0.1
118,390 - HMPREF1058_RS05625 0.88 -0.9
118,405 + HMPREF1058_RS05625 0.90 -1.4
118,409 - -1.2
118,450 - +2.6
118,484 + +1.8
118,485 - -0.8
118,486 + +2.0
118,487 - -1.2
118,623 - HMPREF1058_RS05620 0.38 +0.2
118,678 + HMPREF1058_RS05620 0.55 +0.6
118,678 + HMPREF1058_RS05620 0.55 -2.2
118,678 + HMPREF1058_RS05620 0.55 +0.7
118,817 - +0.4
118,992 - HMPREF1058_RS05615 0.79 -0.9
119,019 + -0.5
119,029 - +0.5
119,079 + +1.7
119,150 - +0.5
119,150 - +1.6
119,150 - +0.5
119,150 - +0.4
119,164 - -0.7
119,166 - -0.6
119,204 + +0.5
119,205 - +1.3
119,205 - -0.8
119,207 - +0.9
119,213 + +0.7
119,244 + +0.8
119,244 + -0.4
119,245 - -1.8
119,246 + +0.3
119,256 - -0.8
119,265 + +1.4
119,385 - -2.1
119,390 + +0.7
119,401 - -0.0
119,401 - +0.1
119,435 + -0.2
119,451 + -0.6
119,452 - +1.2
119,527 + +0.1
119,636 + HMPREF1058_RS05610 0.19 +2.3
119,641 + HMPREF1058_RS05610 0.20 -1.6
119,667 + HMPREF1058_RS05610 0.23 -2.4
119,694 - HMPREF1058_RS05610 0.25 +2.4
119,707 + HMPREF1058_RS05610 0.26 -0.3
119,714 + HMPREF1058_RS05610 0.27 -0.6
119,765 + HMPREF1058_RS05610 0.32 +0.5
119,856 + HMPREF1058_RS05610 0.41 +2.4
119,856 + HMPREF1058_RS05610 0.41 -1.3
119,856 + HMPREF1058_RS05610 0.41 -0.3
119,857 - HMPREF1058_RS05610 0.41 -1.6
119,867 + HMPREF1058_RS05610 0.42 +4.4
119,889 - HMPREF1058_RS05610 0.45 +1.2
120,004 - HMPREF1058_RS05610 0.56 +0.0
120,012 + HMPREF1058_RS05610 0.57 -2.3
120,013 - HMPREF1058_RS05610 0.57 -0.6
120,013 - HMPREF1058_RS05610 0.57 +0.2
120,016 + HMPREF1058_RS05610 0.57 +0.1
120,017 - HMPREF1058_RS05610 0.57 +0.4

Or see this region's nucleotide sequence