Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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_RS02915 and HMPREF1058_RS02910 are separated by 65 nucleotides HMPREF1058_RS02910 and HMPREF1058_RS02905 are separated by 254 nucleotides
HMPREF1058_RS02915: HMPREF1058_RS02915 - TonB-dependent receptor, at 54,320 to 57,124
_RS02915
HMPREF1058_RS02910: HMPREF1058_RS02910 - carbamoyl-phosphate synthase (glutamine-hydrolyzing) large subunit, at 57,190 to 60,411
_RS02910
HMPREF1058_RS02905: HMPREF1058_RS02905 - hypothetical protein, at 60,666 to 61,457
_RS02905
Position (kb) 57
58
59
60
61 Strain fitness (log2 ratio) -6
-5
-4
-3
-2
-1
0
1
2
3 at 56.239 kb on + strand, within HMPREF1058_RS02915 at 56.240 kb on - strand, within HMPREF1058_RS02915 at 56.242 kb on + strand, within HMPREF1058_RS02915 at 56.253 kb on - strand at 56.255 kb on + strand, within HMPREF1058_RS02915 at 56.311 kb on + strand, within HMPREF1058_RS02915 at 56.312 kb on - strand, within HMPREF1058_RS02915 at 56.315 kb on - strand, within HMPREF1058_RS02915 at 56.328 kb on + strand, within HMPREF1058_RS02915 at 56.371 kb on + strand, within HMPREF1058_RS02915 at 56.372 kb on - strand, within HMPREF1058_RS02915 at 56.372 kb on - strand, within HMPREF1058_RS02915 at 56.372 kb on - strand, within HMPREF1058_RS02915 at 56.373 kb on + strand, within HMPREF1058_RS02915 at 56.374 kb on - strand, within HMPREF1058_RS02915 at 56.420 kb on + strand, within HMPREF1058_RS02915 at 56.437 kb on + strand, within HMPREF1058_RS02915 at 56.438 kb on - strand, within HMPREF1058_RS02915 at 56.443 kb on + strand, within HMPREF1058_RS02915 at 56.449 kb on - strand, within HMPREF1058_RS02915 at 56.457 kb on - strand, within HMPREF1058_RS02915 at 56.474 kb on + strand, within HMPREF1058_RS02915 at 56.474 kb on + strand, within HMPREF1058_RS02915 at 56.474 kb on + strand, within HMPREF1058_RS02915 at 56.474 kb on + strand, within HMPREF1058_RS02915 at 56.475 kb on - strand, within HMPREF1058_RS02915 at 56.493 kb on + strand, within HMPREF1058_RS02915 at 56.497 kb on + strand, within HMPREF1058_RS02915 at 56.498 kb on - strand, within HMPREF1058_RS02915 at 56.545 kb on + strand, within HMPREF1058_RS02915 at 56.548 kb on - strand, within HMPREF1058_RS02915 at 56.549 kb on + strand, within HMPREF1058_RS02915 at 56.624 kb on + strand, within HMPREF1058_RS02915 at 56.663 kb on - strand, within HMPREF1058_RS02915 at 56.777 kb on - strand, within HMPREF1058_RS02915 at 56.858 kb on + strand at 56.858 kb on + strand at 56.876 kb on - strand at 56.894 kb on - strand at 56.996 kb on - strand at 57.129 kb on + strand at 57.215 kb on - strand at 57.294 kb on + strand at 57.294 kb on + strand at 57.374 kb on - strand at 57.460 kb on - strand at 57.463 kb on + strand at 57.506 kb on + strand at 57.507 kb on - strand at 57.507 kb on - strand at 57.507 kb on - strand at 57.627 kb on + strand, within HMPREF1058_RS02910 at 57.628 kb on - strand, within HMPREF1058_RS02910 at 57.690 kb on + strand, within HMPREF1058_RS02910 at 57.691 kb on - strand, within HMPREF1058_RS02910 at 57.694 kb on + strand, within HMPREF1058_RS02910 at 57.694 kb on + strand, within HMPREF1058_RS02910 at 57.694 kb on + strand at 57.695 kb on - strand, within HMPREF1058_RS02910 at 57.695 kb on - strand, within HMPREF1058_RS02910 at 58.036 kb on + strand, within HMPREF1058_RS02910 at 58.037 kb on - strand, within HMPREF1058_RS02910 at 58.067 kb on + strand, within HMPREF1058_RS02910 at 58.092 kb on - strand, within HMPREF1058_RS02910 at 58.099 kb on + strand, within HMPREF1058_RS02910 at 58.100 kb on - strand, within HMPREF1058_RS02910 at 58.132 kb on + strand, within HMPREF1058_RS02910 at 58.143 kb on + strand, within HMPREF1058_RS02910 at 58.143 kb on + strand, within HMPREF1058_RS02910 at 58.144 kb on - strand, within HMPREF1058_RS02910 at 58.226 kb on + strand, within HMPREF1058_RS02910 at 58.232 kb on + strand, within HMPREF1058_RS02910 at 58.232 kb on + strand, within HMPREF1058_RS02910 at 58.232 kb on + strand, within HMPREF1058_RS02910 at 58.237 kb on + strand, within HMPREF1058_RS02910 at 58.238 kb on - strand, within HMPREF1058_RS02910 at 58.238 kb on - strand, within HMPREF1058_RS02910 at 58.238 kb on - strand, within HMPREF1058_RS02910 at 58.266 kb on - strand, within HMPREF1058_RS02910 at 58.473 kb on + strand, within HMPREF1058_RS02910 at 58.481 kb on - strand, within HMPREF1058_RS02910 at 58.481 kb on - strand, within HMPREF1058_RS02910 at 58.584 kb on + strand, within HMPREF1058_RS02910 at 58.584 kb on + strand, within HMPREF1058_RS02910 at 58.584 kb on + strand, within HMPREF1058_RS02910 at 58.585 kb on - strand, within HMPREF1058_RS02910 at 58.585 kb on - strand, within HMPREF1058_RS02910 at 58.590 kb on - strand, within HMPREF1058_RS02910 at 58.616 kb on + strand, within HMPREF1058_RS02910 at 58.617 kb on - strand, within HMPREF1058_RS02910 at 58.621 kb on - strand, within HMPREF1058_RS02910 at 58.727 kb on - strand, within HMPREF1058_RS02910 at 58.781 kb on + strand, within HMPREF1058_RS02910 at 58.788 kb on + strand, within HMPREF1058_RS02910 at 58.788 kb on + strand, within HMPREF1058_RS02910 at 58.789 kb on - strand, within HMPREF1058_RS02910 at 58.789 kb on - strand, within HMPREF1058_RS02910 at 58.789 kb on - strand, within HMPREF1058_RS02910 at 58.791 kb on - strand, within HMPREF1058_RS02910 at 58.791 kb on - strand, within HMPREF1058_RS02910 at 58.960 kb on + strand, within HMPREF1058_RS02910 at 58.965 kb on + strand, within HMPREF1058_RS02910 at 59.008 kb on - strand, within HMPREF1058_RS02910 at 59.009 kb on + strand, within HMPREF1058_RS02910 at 59.030 kb on + strand, within HMPREF1058_RS02910 at 59.030 kb on + strand at 59.031 kb on - strand, within HMPREF1058_RS02910 at 59.031 kb on - strand, within HMPREF1058_RS02910 at 59.218 kb on - strand, within HMPREF1058_RS02910 at 59.228 kb on - strand, within HMPREF1058_RS02910 at 59.275 kb on - strand, within HMPREF1058_RS02910 at 59.324 kb on - strand, within HMPREF1058_RS02910 at 59.444 kb on - strand, within HMPREF1058_RS02910 at 59.577 kb on + strand, within HMPREF1058_RS02910 at 59.580 kb on + strand, within HMPREF1058_RS02910 at 59.580 kb on + strand, within HMPREF1058_RS02910 at 59.581 kb on - strand, within HMPREF1058_RS02910 at 59.642 kb on - strand, within HMPREF1058_RS02910 at 59.683 kb on - strand, within HMPREF1058_RS02910 at 59.683 kb on - strand, within HMPREF1058_RS02910 at 59.887 kb on + strand, within HMPREF1058_RS02910 at 60.044 kb on + strand, within HMPREF1058_RS02910 at 60.044 kb on + strand, within HMPREF1058_RS02910 at 60.044 kb on + strand, within HMPREF1058_RS02910 at 60.045 kb on - strand, within HMPREF1058_RS02910 at 60.074 kb on - strand, within HMPREF1058_RS02910 at 60.074 kb on - strand, within HMPREF1058_RS02910 at 60.079 kb on + strand, within HMPREF1058_RS02910 at 60.086 kb on + strand, within HMPREF1058_RS02910 at 60.086 kb on + strand, within HMPREF1058_RS02910 at 60.335 kb on + strand at 60.335 kb on + strand at 60.425 kb on + strand at 60.429 kb on - strand at 60.431 kb on - strand at 60.431 kb on - strand at 60.434 kb on - strand at 60.442 kb on + strand at 60.505 kb on + strand at 60.505 kb on + strand at 60.506 kb on - strand at 60.511 kb on + strand at 60.516 kb on + strand at 60.516 kb on + strand at 60.536 kb on - strand at 60.540 kb on - strand at 60.545 kb on + strand at 60.564 kb on + strand at 60.573 kb on - strand at 60.747 kb on - strand, within HMPREF1058_RS02905 at 60.776 kb on + strand, within HMPREF1058_RS02905 at 60.777 kb on - strand, within HMPREF1058_RS02905 at 60.784 kb on + strand, within HMPREF1058_RS02905 at 60.784 kb on + strand, within HMPREF1058_RS02905 at 60.784 kb on + strand, within HMPREF1058_RS02905 at 60.785 kb on - strand, within HMPREF1058_RS02905 at 60.785 kb on - strand, within HMPREF1058_RS02905 at 60.786 kb on + strand, within HMPREF1058_RS02905 at 60.787 kb on - strand, within HMPREF1058_RS02905 at 60.789 kb on - strand, within HMPREF1058_RS02905 at 60.872 kb on - strand, within HMPREF1058_RS02905 at 60.920 kb on + strand, within HMPREF1058_RS02905 at 60.922 kb on + strand, within HMPREF1058_RS02905 at 60.961 kb on + strand, within HMPREF1058_RS02905 at 60.994 kb on - strand, within HMPREF1058_RS02905 at 61.015 kb on + strand, within HMPREF1058_RS02905 at 61.055 kb on - strand, within HMPREF1058_RS02905 at 61.076 kb on - strand, within HMPREF1058_RS02905 at 61.076 kb on - strand, within HMPREF1058_RS02905 at 61.110 kb on + strand, within HMPREF1058_RS02905 at 61.111 kb on - strand, within HMPREF1058_RS02905 at 61.144 kb on - strand, within HMPREF1058_RS02905 at 61.181 kb on - strand, within HMPREF1058_RS02905 at 61.238 kb on + strand, within HMPREF1058_RS02905 at 61.281 kb on + strand, within HMPREF1058_RS02905 at 61.295 kb on - strand, within HMPREF1058_RS02905
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4 remove 56,239 + HMPREF1058_RS02915 0.68 +0.7 56,240 - HMPREF1058_RS02915 0.68 -0.1 56,242 + HMPREF1058_RS02915 0.69 +0.5 56,253 - +0.9 56,255 + HMPREF1058_RS02915 0.69 +0.3 56,311 + HMPREF1058_RS02915 0.71 +1.6 56,312 - HMPREF1058_RS02915 0.71 -0.0 56,315 - HMPREF1058_RS02915 0.71 -0.6 56,328 + HMPREF1058_RS02915 0.72 -0.1 56,371 + HMPREF1058_RS02915 0.73 -0.2 56,372 - HMPREF1058_RS02915 0.73 -0.2 56,372 - HMPREF1058_RS02915 0.73 +0.4 56,372 - HMPREF1058_RS02915 0.73 -0.5 56,373 + HMPREF1058_RS02915 0.73 -0.8 56,374 - HMPREF1058_RS02915 0.73 +0.9 56,420 + HMPREF1058_RS02915 0.75 +0.9 56,437 + HMPREF1058_RS02915 0.75 +0.6 56,438 - HMPREF1058_RS02915 0.76 -2.0 56,443 + HMPREF1058_RS02915 0.76 +2.3 56,449 - HMPREF1058_RS02915 0.76 +0.0 56,457 - HMPREF1058_RS02915 0.76 +1.2 56,474 + HMPREF1058_RS02915 0.77 +0.9 56,474 + HMPREF1058_RS02915 0.77 +0.1 56,474 + HMPREF1058_RS02915 0.77 -1.3 56,474 + HMPREF1058_RS02915 0.77 +1.5 56,475 - HMPREF1058_RS02915 0.77 +0.6 56,493 + HMPREF1058_RS02915 0.77 +0.2 56,497 + HMPREF1058_RS02915 0.78 -0.1 56,498 - HMPREF1058_RS02915 0.78 -2.1 56,545 + HMPREF1058_RS02915 0.79 +0.8 56,548 - HMPREF1058_RS02915 0.79 +0.7 56,549 + HMPREF1058_RS02915 0.79 +1.1 56,624 + HMPREF1058_RS02915 0.82 +2.8 56,663 - HMPREF1058_RS02915 0.84 -0.6 56,777 - HMPREF1058_RS02915 0.88 +0.4 56,858 + +0.6 56,858 + +0.7 56,876 - +1.5 56,894 - -1.5 56,996 - +1.0 57,129 + -0.2 57,215 - -1.5 57,294 + -2.3 57,294 + -3.6 57,374 - -2.9 57,460 - -3.7 57,463 + -2.7 57,506 + -0.1 57,507 - -2.4 57,507 - -3.5 57,507 - -3.9 57,627 + HMPREF1058_RS02910 0.14 -1.7 57,628 - HMPREF1058_RS02910 0.14 -1.4 57,690 + HMPREF1058_RS02910 0.16 -1.4 57,691 - HMPREF1058_RS02910 0.16 -1.5 57,694 + HMPREF1058_RS02910 0.16 -2.1 57,694 + HMPREF1058_RS02910 0.16 -2.4 57,694 + -1.7 57,695 - HMPREF1058_RS02910 0.16 -0.1 57,695 - HMPREF1058_RS02910 0.16 -4.1 58,036 + HMPREF1058_RS02910 0.26 -0.8 58,037 - HMPREF1058_RS02910 0.26 -2.3 58,067 + HMPREF1058_RS02910 0.27 -3.1 58,092 - HMPREF1058_RS02910 0.28 -3.3 58,099 + HMPREF1058_RS02910 0.28 -3.4 58,100 - HMPREF1058_RS02910 0.28 -3.6 58,132 + HMPREF1058_RS02910 0.29 -3.3 58,143 + HMPREF1058_RS02910 0.30 -3.8 58,143 + HMPREF1058_RS02910 0.30 -2.4 58,144 - HMPREF1058_RS02910 0.30 -3.0 58,226 + HMPREF1058_RS02910 0.32 +0.3 58,232 + HMPREF1058_RS02910 0.32 -1.1 58,232 + HMPREF1058_RS02910 0.32 -3.8 58,232 + HMPREF1058_RS02910 0.32 -3.7 58,237 + HMPREF1058_RS02910 0.32 -2.1 58,238 - HMPREF1058_RS02910 0.33 -2.4 58,238 - HMPREF1058_RS02910 0.33 -2.3 58,238 - HMPREF1058_RS02910 0.33 -2.0 58,266 - HMPREF1058_RS02910 0.33 -3.3 58,473 + HMPREF1058_RS02910 0.40 -1.1 58,481 - HMPREF1058_RS02910 0.40 -3.5 58,481 - HMPREF1058_RS02910 0.40 -4.7 58,584 + HMPREF1058_RS02910 0.43 -5.8 58,584 + HMPREF1058_RS02910 0.43 -2.9 58,584 + HMPREF1058_RS02910 0.43 -2.4 58,585 - HMPREF1058_RS02910 0.43 -2.7 58,585 - HMPREF1058_RS02910 0.43 -4.1 58,590 - HMPREF1058_RS02910 0.43 -3.0 58,616 + HMPREF1058_RS02910 0.44 -1.7 58,617 - HMPREF1058_RS02910 0.44 -3.9 58,621 - HMPREF1058_RS02910 0.44 -1.7 58,727 - HMPREF1058_RS02910 0.48 -1.7 58,781 + HMPREF1058_RS02910 0.49 -2.9 58,788 + HMPREF1058_RS02910 0.50 -2.3 58,788 + HMPREF1058_RS02910 0.50 -1.7 58,789 - HMPREF1058_RS02910 0.50 -2.9 58,789 - HMPREF1058_RS02910 0.50 +0.5 58,789 - HMPREF1058_RS02910 0.50 -0.4 58,791 - HMPREF1058_RS02910 0.50 -2.1 58,791 - HMPREF1058_RS02910 0.50 -2.4 58,960 + HMPREF1058_RS02910 0.55 -4.0 58,965 + HMPREF1058_RS02910 0.55 -4.8 59,008 - HMPREF1058_RS02910 0.56 -3.2 59,009 + HMPREF1058_RS02910 0.56 -2.6 59,030 + HMPREF1058_RS02910 0.57 -0.8 59,030 + -0.1 59,031 - HMPREF1058_RS02910 0.57 -0.9 59,031 - HMPREF1058_RS02910 0.57 -4.9 59,218 - HMPREF1058_RS02910 0.63 -3.1 59,228 - HMPREF1058_RS02910 0.63 -2.7 59,275 - HMPREF1058_RS02910 0.65 -5.4 59,324 - HMPREF1058_RS02910 0.66 -1.1 59,444 - HMPREF1058_RS02910 0.70 -1.7 59,577 + HMPREF1058_RS02910 0.74 -3.3 59,580 + HMPREF1058_RS02910 0.74 -3.2 59,580 + HMPREF1058_RS02910 0.74 -2.9 59,581 - HMPREF1058_RS02910 0.74 -3.4 59,642 - HMPREF1058_RS02910 0.76 -3.8 59,683 - HMPREF1058_RS02910 0.77 -2.9 59,683 - HMPREF1058_RS02910 0.77 -2.7 59,887 + HMPREF1058_RS02910 0.84 -1.7 60,044 + HMPREF1058_RS02910 0.89 -2.4 60,044 + HMPREF1058_RS02910 0.89 -1.1 60,044 + HMPREF1058_RS02910 0.89 -2.1 60,045 - HMPREF1058_RS02910 0.89 -2.7 60,074 - HMPREF1058_RS02910 0.90 -1.6 60,074 - HMPREF1058_RS02910 0.90 -4.4 60,079 + HMPREF1058_RS02910 0.90 -0.8 60,086 + HMPREF1058_RS02910 0.90 -3.2 60,086 + HMPREF1058_RS02910 0.90 -2.4 60,335 + -5.3 60,335 + -3.0 60,425 + -3.4 60,429 - +0.6 60,431 - -1.1 60,431 - -0.7 60,434 - +2.1 60,442 + -4.1 60,505 + -3.1 60,505 + -2.4 60,506 - -3.4 60,511 + -3.5 60,516 + -2.1 60,516 + -2.1 60,536 - +0.4 60,540 - -1.1 60,545 + -1.7 60,564 + -4.4 60,573 - -0.6 60,747 - HMPREF1058_RS02905 0.10 +0.4 60,776 + HMPREF1058_RS02905 0.14 -0.1 60,777 - HMPREF1058_RS02905 0.14 -0.3 60,784 + HMPREF1058_RS02905 0.15 +2.1 60,784 + HMPREF1058_RS02905 0.15 +1.1 60,784 + HMPREF1058_RS02905 0.15 +1.4 60,785 - HMPREF1058_RS02905 0.15 -0.1 60,785 - HMPREF1058_RS02905 0.15 -2.9 60,786 + HMPREF1058_RS02905 0.15 -0.0 60,787 - HMPREF1058_RS02905 0.15 -0.5 60,789 - HMPREF1058_RS02905 0.16 -2.3 60,872 - HMPREF1058_RS02905 0.26 +1.1 60,920 + HMPREF1058_RS02905 0.32 +1.9 60,922 + HMPREF1058_RS02905 0.32 +2.2 60,961 + HMPREF1058_RS02905 0.37 -2.1 60,994 - HMPREF1058_RS02905 0.41 -1.3 61,015 + HMPREF1058_RS02905 0.44 -1.1 61,055 - HMPREF1058_RS02905 0.49 +0.9 61,076 - HMPREF1058_RS02905 0.52 -0.5 61,076 - HMPREF1058_RS02905 0.52 -0.7 61,110 + HMPREF1058_RS02905 0.56 +1.5 61,111 - HMPREF1058_RS02905 0.56 +1.3 61,144 - HMPREF1058_RS02905 0.60 +1.1 61,181 - HMPREF1058_RS02905 0.65 -1.7 61,238 + HMPREF1058_RS02905 0.72 -0.7 61,281 + HMPREF1058_RS02905 0.78 -1.0 61,295 - HMPREF1058_RS02905 0.79 +1.9
Or see this region's nucleotide sequence