Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01575

Experiment: Rhamnogalacturonan from soy bean pectic fibre 2.5 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_RS01585 and HMPREF1058_RS01580 are separated by 101 nucleotidesHMPREF1058_RS01580 and HMPREF1058_RS01575 overlap by 38 nucleotidesHMPREF1058_RS01575 and HMPREF1058_RS01570 are separated by 103 nucleotides HMPREF1058_RS01585: HMPREF1058_RS01585 - tagaturonate reductase, at 86,882 to 88,321 _RS01585 HMPREF1058_RS01580: HMPREF1058_RS01580 - hypothetical protein, at 88,423 to 88,836 _RS01580 HMPREF1058_RS01575: HMPREF1058_RS01575 - precorrin-2 C(20)-methyltransferase, at 88,799 to 89,527 _RS01575 HMPREF1058_RS01570: HMPREF1058_RS01570 - ABC transporter substrate-binding protein, at 89,631 to 90,782 _RS01570 Position (kb) 88 89 90Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 87.825 kb on - strand, within HMPREF1058_RS01585at 87.832 kb on + strand, within HMPREF1058_RS01585at 87.977 kb on + strand, within HMPREF1058_RS01585at 87.977 kb on + strand, within HMPREF1058_RS01585at 88.010 kb on + strand, within HMPREF1058_RS01585at 88.077 kb on - strand, within HMPREF1058_RS01585at 88.257 kb on + strandat 88.277 kb on - strandat 88.292 kb on - strandat 88.313 kb on - strandat 88.374 kb on + strandat 88.403 kb on - strandat 88.412 kb on - strandat 88.473 kb on + strand, within HMPREF1058_RS01580at 88.473 kb on + strand, within HMPREF1058_RS01580at 88.474 kb on - strand, within HMPREF1058_RS01580at 88.497 kb on + strand, within HMPREF1058_RS01580at 88.498 kb on - strand, within HMPREF1058_RS01580at 88.526 kb on - strand, within HMPREF1058_RS01580at 88.578 kb on - strand, within HMPREF1058_RS01580at 88.588 kb on + strand, within HMPREF1058_RS01580at 88.594 kb on - strand, within HMPREF1058_RS01580at 88.620 kb on + strand, within HMPREF1058_RS01580at 88.866 kb on - strandat 88.966 kb on - strand, within HMPREF1058_RS01575at 88.966 kb on - strand, within HMPREF1058_RS01575at 88.976 kb on + strand, within HMPREF1058_RS01575at 88.976 kb on + strand, within HMPREF1058_RS01575at 88.976 kb on + strand, within HMPREF1058_RS01575at 89.031 kb on + strand, within HMPREF1058_RS01575at 89.031 kb on + strand, within HMPREF1058_RS01575at 89.032 kb on - strand, within HMPREF1058_RS01575at 89.054 kb on - strand, within HMPREF1058_RS01575at 89.103 kb on - strand, within HMPREF1058_RS01575at 89.189 kb on + strand, within HMPREF1058_RS01575at 89.190 kb on - strand, within HMPREF1058_RS01575at 89.194 kb on - strand, within HMPREF1058_RS01575at 89.194 kb on - strand, within HMPREF1058_RS01575at 89.346 kb on - strand, within HMPREF1058_RS01575at 89.346 kb on - strand, within HMPREF1058_RS01575at 89.347 kb on + strand, within HMPREF1058_RS01575at 89.363 kb on + strand, within HMPREF1058_RS01575at 89.364 kb on - strand, within HMPREF1058_RS01575at 89.369 kb on - strand, within HMPREF1058_RS01575at 89.430 kb on + strand, within HMPREF1058_RS01575at 89.431 kb on - strand, within HMPREF1058_RS01575at 89.432 kb on + strand, within HMPREF1058_RS01575at 89.433 kb on - strand, within HMPREF1058_RS01575at 89.433 kb on - strandat 89.512 kb on - strandat 89.535 kb on - strandat 89.551 kb on + strandat 89.583 kb on - strandat 89.747 kb on + strand, within HMPREF1058_RS01570at 89.769 kb on + strandat 89.783 kb on + strand, within HMPREF1058_RS01570at 90.071 kb on + strand, within HMPREF1058_RS01570at 90.072 kb on - strand, within HMPREF1058_RS01570at 90.076 kb on + strand, within HMPREF1058_RS01570at 90.076 kb on + strand, within HMPREF1058_RS01570at 90.081 kb on - strand, within HMPREF1058_RS01570at 90.111 kb on - strand, within HMPREF1058_RS01570at 90.181 kb on + strand, within HMPREF1058_RS01570at 90.213 kb on - strand, within HMPREF1058_RS01570at 90.282 kb on - strand, within HMPREF1058_RS01570at 90.287 kb on + strand, within HMPREF1058_RS01570at 90.287 kb on + strand, within HMPREF1058_RS01570at 90.308 kb on + strand, within HMPREF1058_RS01570

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)
remove
87,825 - HMPREF1058_RS01585 0.65 -2.4
87,832 + HMPREF1058_RS01585 0.66 -3.7
87,977 + HMPREF1058_RS01585 0.76 -3.3
87,977 + HMPREF1058_RS01585 0.76 -0.8
88,010 + HMPREF1058_RS01585 0.78 -4.1
88,077 - HMPREF1058_RS01585 0.83 -1.6
88,257 + -1.8
88,277 - +1.3
88,292 - -1.1
88,313 - -2.8
88,374 + -0.0
88,403 - -0.8
88,412 - -1.3
88,473 + HMPREF1058_RS01580 0.12 -1.9
88,473 + HMPREF1058_RS01580 0.12 +0.4
88,474 - HMPREF1058_RS01580 0.12 -0.1
88,497 + HMPREF1058_RS01580 0.18 +0.7
88,498 - HMPREF1058_RS01580 0.18 +0.1
88,526 - HMPREF1058_RS01580 0.25 +1.0
88,578 - HMPREF1058_RS01580 0.37 -0.1
88,588 + HMPREF1058_RS01580 0.40 -1.1
88,594 - HMPREF1058_RS01580 0.41 -1.0
88,620 + HMPREF1058_RS01580 0.48 +2.9
88,866 - -2.0
88,966 - HMPREF1058_RS01575 0.23 -0.4
88,966 - HMPREF1058_RS01575 0.23 -0.4
88,976 + HMPREF1058_RS01575 0.24 +1.3
88,976 + HMPREF1058_RS01575 0.24 -1.7
88,976 + HMPREF1058_RS01575 0.24 -0.1
89,031 + HMPREF1058_RS01575 0.32 -1.0
89,031 + HMPREF1058_RS01575 0.32 +0.2
89,032 - HMPREF1058_RS01575 0.32 -2.4
89,054 - HMPREF1058_RS01575 0.35 -2.8
89,103 - HMPREF1058_RS01575 0.42 -2.3
89,189 + HMPREF1058_RS01575 0.53 -2.5
89,190 - HMPREF1058_RS01575 0.54 -2.6
89,194 - HMPREF1058_RS01575 0.54 -0.7
89,194 - HMPREF1058_RS01575 0.54 -1.8
89,346 - HMPREF1058_RS01575 0.75 -1.2
89,346 - HMPREF1058_RS01575 0.75 +0.5
89,347 + HMPREF1058_RS01575 0.75 -0.8
89,363 + HMPREF1058_RS01575 0.77 +1.9
89,364 - HMPREF1058_RS01575 0.78 +1.0
89,369 - HMPREF1058_RS01575 0.78 -1.7
89,430 + HMPREF1058_RS01575 0.87 -0.1
89,431 - HMPREF1058_RS01575 0.87 +0.9
89,432 + HMPREF1058_RS01575 0.87 -0.1
89,433 - HMPREF1058_RS01575 0.87 +0.5
89,433 - -0.8
89,512 - -0.1
89,535 - +2.3
89,551 + +2.2
89,583 - -1.7
89,747 + HMPREF1058_RS01570 0.10 -0.7
89,769 + +1.9
89,783 + HMPREF1058_RS01570 0.13 -2.0
90,071 + HMPREF1058_RS01570 0.38 -0.1
90,072 - HMPREF1058_RS01570 0.38 -1.8
90,076 + HMPREF1058_RS01570 0.39 -1.0
90,076 + HMPREF1058_RS01570 0.39 -0.2
90,081 - HMPREF1058_RS01570 0.39 +1.9
90,111 - HMPREF1058_RS01570 0.42 -1.1
90,181 + HMPREF1058_RS01570 0.48 -1.1
90,213 - HMPREF1058_RS01570 0.51 -1.7
90,282 - HMPREF1058_RS01570 0.57 -0.7
90,287 + HMPREF1058_RS01570 0.57 +0.3
90,287 + HMPREF1058_RS01570 0.57 -1.0
90,308 + HMPREF1058_RS01570 0.59 +1.9

Or see this region's nucleotide sequence