Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day6
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.
500 nt HMPREF1058_RS07065 and HMPREF1058_RS07060 are separated by 43 nucleotides HMPREF1058_RS07060 and HMPREF1058_RS07055 are separated by 10 nucleotides HMPREF1058_RS07055 and HMPREF1058_RS07050 are separated by 206 nucleotides HMPREF1058_RS07050 and HMPREF1058_RS07045 are separated by 23 nucleotides
HMPREF1058_RS07065: HMPREF1058_RS07065 - OmpA family protein, at 324,290 to 325,384
_RS07065
HMPREF1058_RS07060: HMPREF1058_RS07060 - DUF3869 domain-containing protein, at 325,428 to 326,276
_RS07060
HMPREF1058_RS07055: HMPREF1058_RS07055 - hypothetical protein, at 326,287 to 327,525
_RS07055
HMPREF1058_RS07050: HMPREF1058_RS07050 - Holliday junction resolvase RuvX, at 327,732 to 328,151
_RS07050
HMPREF1058_RS07045: HMPREF1058_RS07045 - peptide deformylase, at 328,175 to 328,729
_RS07045
Position (kb) 326
327
328 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2 at 325.301 kb on - strand at 325.301 kb on - strand at 325.341 kb on - strand at 325.405 kb on + strand at 325.442 kb on + strand at 325.443 kb on - strand at 325.542 kb on - strand, within HMPREF1058_RS07060 at 325.547 kb on + strand, within HMPREF1058_RS07060 at 325.639 kb on + strand, within HMPREF1058_RS07060 at 325.656 kb on - strand, within HMPREF1058_RS07060 at 325.681 kb on - strand, within HMPREF1058_RS07060 at 325.681 kb on - strand, within HMPREF1058_RS07060 at 325.689 kb on + strand, within HMPREF1058_RS07060 at 325.734 kb on - strand, within HMPREF1058_RS07060 at 325.777 kb on - strand, within HMPREF1058_RS07060 at 325.804 kb on + strand, within HMPREF1058_RS07060 at 325.819 kb on + strand, within HMPREF1058_RS07060 at 325.820 kb on - strand, within HMPREF1058_RS07060 at 325.863 kb on - strand, within HMPREF1058_RS07060 at 325.873 kb on - strand, within HMPREF1058_RS07060 at 325.926 kb on - strand, within HMPREF1058_RS07060 at 325.928 kb on + strand, within HMPREF1058_RS07060 at 325.974 kb on - strand, within HMPREF1058_RS07060 at 326.003 kb on - strand, within HMPREF1058_RS07060 at 326.014 kb on - strand, within HMPREF1058_RS07060 at 326.016 kb on - strand, within HMPREF1058_RS07060 at 326.034 kb on + strand, within HMPREF1058_RS07060 at 326.035 kb on - strand, within HMPREF1058_RS07060 at 326.098 kb on - strand, within HMPREF1058_RS07060 at 326.221 kb on - strand at 326.223 kb on + strand at 326.240 kb on + strand at 326.334 kb on + strand at 326.335 kb on - strand at 326.368 kb on - strand at 326.369 kb on + strand at 326.370 kb on - strand at 326.382 kb on - strand at 326.406 kb on - strand at 326.445 kb on + strand, within HMPREF1058_RS07055 at 326.448 kb on - strand, within HMPREF1058_RS07055 at 326.448 kb on - strand, within HMPREF1058_RS07055 at 326.448 kb on - strand, within HMPREF1058_RS07055 at 326.452 kb on - strand, within HMPREF1058_RS07055 at 326.452 kb on - strand, within HMPREF1058_RS07055 at 326.452 kb on - strand, within HMPREF1058_RS07055 at 326.452 kb on - strand, within HMPREF1058_RS07055 at 326.506 kb on - strand, within HMPREF1058_RS07055 at 326.567 kb on - strand, within HMPREF1058_RS07055 at 326.599 kb on + strand, within HMPREF1058_RS07055 at 326.599 kb on + strand, within HMPREF1058_RS07055 at 326.603 kb on + strand, within HMPREF1058_RS07055 at 326.604 kb on - strand, within HMPREF1058_RS07055 at 326.694 kb on - strand at 326.722 kb on + strand, within HMPREF1058_RS07055 at 326.723 kb on - strand at 326.723 kb on - strand, within HMPREF1058_RS07055 at 326.723 kb on - strand, within HMPREF1058_RS07055 at 326.723 kb on - strand, within HMPREF1058_RS07055 at 326.728 kb on + strand, within HMPREF1058_RS07055 at 326.728 kb on + strand, within HMPREF1058_RS07055 at 326.728 kb on + strand, within HMPREF1058_RS07055 at 326.729 kb on - strand, within HMPREF1058_RS07055 at 326.739 kb on + strand, within HMPREF1058_RS07055 at 326.749 kb on + strand, within HMPREF1058_RS07055 at 326.750 kb on - strand, within HMPREF1058_RS07055 at 326.752 kb on - strand, within HMPREF1058_RS07055 at 326.789 kb on - strand, within HMPREF1058_RS07055 at 326.824 kb on + strand, within HMPREF1058_RS07055 at 326.825 kb on - strand, within HMPREF1058_RS07055 at 326.826 kb on + strand, within HMPREF1058_RS07055 at 326.841 kb on - strand, within HMPREF1058_RS07055 at 326.844 kb on + strand, within HMPREF1058_RS07055 at 326.845 kb on - strand, within HMPREF1058_RS07055 at 326.847 kb on + strand, within HMPREF1058_RS07055 at 326.847 kb on + strand, within HMPREF1058_RS07055 at 326.847 kb on + strand, within HMPREF1058_RS07055 at 326.850 kb on - strand, within HMPREF1058_RS07055 at 326.878 kb on + strand, within HMPREF1058_RS07055 at 326.881 kb on - strand, within HMPREF1058_RS07055 at 326.881 kb on - strand, within HMPREF1058_RS07055 at 326.881 kb on - strand, within HMPREF1058_RS07055 at 326.881 kb on - strand, within HMPREF1058_RS07055 at 326.928 kb on - strand, within HMPREF1058_RS07055 at 326.975 kb on + strand, within HMPREF1058_RS07055 at 327.004 kb on + strand, within HMPREF1058_RS07055 at 327.005 kb on - strand, within HMPREF1058_RS07055 at 327.016 kb on + strand, within HMPREF1058_RS07055 at 327.039 kb on + strand, within HMPREF1058_RS07055 at 327.039 kb on + strand, within HMPREF1058_RS07055 at 327.041 kb on + strand, within HMPREF1058_RS07055 at 327.046 kb on + strand, within HMPREF1058_RS07055 at 327.058 kb on + strand, within HMPREF1058_RS07055 at 327.066 kb on + strand, within HMPREF1058_RS07055 at 327.066 kb on + strand, within HMPREF1058_RS07055 at 327.216 kb on + strand, within HMPREF1058_RS07055 at 327.217 kb on - strand, within HMPREF1058_RS07055 at 327.220 kb on - strand, within HMPREF1058_RS07055 at 327.220 kb on - strand, within HMPREF1058_RS07055 at 327.220 kb on - strand, within HMPREF1058_RS07055 at 327.221 kb on + strand, within HMPREF1058_RS07055 at 327.222 kb on - strand, within HMPREF1058_RS07055 at 327.222 kb on - strand, within HMPREF1058_RS07055 at 327.274 kb on + strand, within HMPREF1058_RS07055 at 327.280 kb on - strand, within HMPREF1058_RS07055 at 327.280 kb on - strand, within HMPREF1058_RS07055 at 327.280 kb on - strand, within HMPREF1058_RS07055 at 327.283 kb on + strand, within HMPREF1058_RS07055 at 327.284 kb on - strand, within HMPREF1058_RS07055 at 327.339 kb on - strand, within HMPREF1058_RS07055 at 327.339 kb on - strand, within HMPREF1058_RS07055 at 327.409 kb on + strand at 327.466 kb on - strand at 327.466 kb on - strand at 327.469 kb on + strand at 327.471 kb on + strand at 327.472 kb on - strand at 327.472 kb on - strand at 327.528 kb on + strand at 327.570 kb on - strand at 327.686 kb on + strand at 327.689 kb on - strand at 327.698 kb on - strand at 327.731 kb on + strand at 328.143 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day6 remove 325,301 - -1.0 325,301 - -2.8 325,341 - -1.6 325,405 + -1.6 325,442 + +1.0 325,443 - +1.3 325,542 - HMPREF1058_RS07060 0.13 +0.6 325,547 + HMPREF1058_RS07060 0.14 -2.0 325,639 + HMPREF1058_RS07060 0.25 -0.6 325,656 - HMPREF1058_RS07060 0.27 +1.0 325,681 - HMPREF1058_RS07060 0.30 +0.0 325,681 - HMPREF1058_RS07060 0.30 -2.1 325,689 + HMPREF1058_RS07060 0.31 -3.9 325,734 - HMPREF1058_RS07060 0.36 -1.0 325,777 - HMPREF1058_RS07060 0.41 -2.3 325,804 + HMPREF1058_RS07060 0.44 -2.7 325,819 + HMPREF1058_RS07060 0.46 -1.6 325,820 - HMPREF1058_RS07060 0.46 -1.3 325,863 - HMPREF1058_RS07060 0.51 -0.3 325,873 - HMPREF1058_RS07060 0.52 +0.0 325,926 - HMPREF1058_RS07060 0.59 -2.3 325,928 + HMPREF1058_RS07060 0.59 -1.0 325,974 - HMPREF1058_RS07060 0.64 -1.1 326,003 - HMPREF1058_RS07060 0.68 -3.4 326,014 - HMPREF1058_RS07060 0.69 -4.3 326,016 - HMPREF1058_RS07060 0.69 -3.1 326,034 + HMPREF1058_RS07060 0.71 -2.0 326,035 - HMPREF1058_RS07060 0.71 -1.6 326,098 - HMPREF1058_RS07060 0.79 -2.8 326,221 - -3.8 326,223 + +0.4 326,240 + -2.0 326,334 + -1.0 326,335 - +0.0 326,368 - -2.3 326,369 + +0.0 326,370 - -1.6 326,382 - -0.7 326,406 - +0.0 326,445 + HMPREF1058_RS07055 0.13 -1.0 326,448 - HMPREF1058_RS07055 0.13 -3.8 326,448 - HMPREF1058_RS07055 0.13 -3.7 326,448 - HMPREF1058_RS07055 0.13 -1.2 326,452 - HMPREF1058_RS07055 0.13 -3.0 326,452 - HMPREF1058_RS07055 0.13 -0.6 326,452 - HMPREF1058_RS07055 0.13 -1.0 326,452 - HMPREF1058_RS07055 0.13 -1.2 326,506 - HMPREF1058_RS07055 0.18 +2.6 326,567 - HMPREF1058_RS07055 0.23 +0.2 326,599 + HMPREF1058_RS07055 0.25 -2.8 326,599 + HMPREF1058_RS07055 0.25 -1.6 326,603 + HMPREF1058_RS07055 0.26 -1.6 326,604 - HMPREF1058_RS07055 0.26 -3.0 326,694 - +1.0 326,722 + HMPREF1058_RS07055 0.35 -1.0 326,723 - +0.0 326,723 - HMPREF1058_RS07055 0.35 -2.3 326,723 - HMPREF1058_RS07055 0.35 -1.8 326,723 - HMPREF1058_RS07055 0.35 +1.6 326,728 + HMPREF1058_RS07055 0.36 -1.6 326,728 + HMPREF1058_RS07055 0.36 -1.6 326,728 + HMPREF1058_RS07055 0.36 -1.0 326,729 - HMPREF1058_RS07055 0.36 +0.0 326,739 + HMPREF1058_RS07055 0.36 -4.0 326,749 + HMPREF1058_RS07055 0.37 -2.8 326,750 - HMPREF1058_RS07055 0.37 -0.5 326,752 - HMPREF1058_RS07055 0.38 -0.8 326,789 - HMPREF1058_RS07055 0.41 +0.7 326,824 + HMPREF1058_RS07055 0.43 -3.4 326,825 - HMPREF1058_RS07055 0.43 +0.6 326,826 + HMPREF1058_RS07055 0.44 -1.7 326,841 - HMPREF1058_RS07055 0.45 +0.0 326,844 + HMPREF1058_RS07055 0.45 -1.6 326,845 - HMPREF1058_RS07055 0.45 -2.3 326,847 + HMPREF1058_RS07055 0.45 +0.0 326,847 + HMPREF1058_RS07055 0.45 -1.0 326,847 + HMPREF1058_RS07055 0.45 +1.6 326,850 - HMPREF1058_RS07055 0.45 -2.3 326,878 + HMPREF1058_RS07055 0.48 -2.3 326,881 - HMPREF1058_RS07055 0.48 -0.4 326,881 - HMPREF1058_RS07055 0.48 -2.0 326,881 - HMPREF1058_RS07055 0.48 -0.7 326,881 - HMPREF1058_RS07055 0.48 -1.0 326,928 - HMPREF1058_RS07055 0.52 -0.4 326,975 + HMPREF1058_RS07055 0.56 +0.0 327,004 + HMPREF1058_RS07055 0.58 -2.3 327,005 - HMPREF1058_RS07055 0.58 +0.0 327,016 + HMPREF1058_RS07055 0.59 -3.3 327,039 + HMPREF1058_RS07055 0.61 +0.0 327,039 + HMPREF1058_RS07055 0.61 -1.0 327,041 + HMPREF1058_RS07055 0.61 -1.6 327,046 + HMPREF1058_RS07055 0.61 -1.2 327,058 + HMPREF1058_RS07055 0.62 -2.6 327,066 + HMPREF1058_RS07055 0.63 -1.6 327,066 + HMPREF1058_RS07055 0.63 -1.7 327,216 + HMPREF1058_RS07055 0.75 -2.8 327,217 - HMPREF1058_RS07055 0.75 +1.3 327,220 - HMPREF1058_RS07055 0.75 -1.2 327,220 - HMPREF1058_RS07055 0.75 -1.6 327,220 - HMPREF1058_RS07055 0.75 -1.5 327,221 + HMPREF1058_RS07055 0.75 -0.8 327,222 - HMPREF1058_RS07055 0.75 -2.8 327,222 - HMPREF1058_RS07055 0.75 -1.6 327,274 + HMPREF1058_RS07055 0.80 -2.3 327,280 - HMPREF1058_RS07055 0.80 -2.0 327,280 - HMPREF1058_RS07055 0.80 -2.6 327,280 - HMPREF1058_RS07055 0.80 -1.0 327,283 + HMPREF1058_RS07055 0.80 +0.0 327,284 - HMPREF1058_RS07055 0.80 -1.0 327,339 - HMPREF1058_RS07055 0.85 -1.0 327,339 - HMPREF1058_RS07055 0.85 +0.3 327,409 + -2.8 327,466 - -1.6 327,466 - -1.0 327,469 + -3.3 327,471 + -2.0 327,472 - -2.2 327,472 - +0.0 327,528 + -1.6 327,570 - +0.3 327,686 + -0.6 327,689 - -1.6 327,698 - -2.0 327,731 + -2.8 328,143 + +0.0
Or see this region's nucleotide sequence