Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; 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_RS12610 and HMPREF1058_RS12605 are separated by 12 nucleotides HMPREF1058_RS12605 and HMPREF1058_RS20605 are separated by 40 nucleotides HMPREF1058_RS20605 and HMPREF1058_RS12600 are separated by 68 nucleotides HMPREF1058_RS12600 and HMPREF1058_RS12595 are separated by 220 nucleotides HMPREF1058_RS12595 and HMPREF1058_RS12590 are separated by 58 nucleotides
HMPREF1058_RS12610: HMPREF1058_RS12610 - NUDIX hydrolase, at 71,029 to 71,655
_RS12610
HMPREF1058_RS12605: HMPREF1058_RS12605 - HAD family hydrolase, at 71,668 to 72,288
_RS12605
HMPREF1058_RS20605: HMPREF1058_RS20605 - hypothetical protein, at 72,329 to 72,568
_RS20605
HMPREF1058_RS12600: HMPREF1058_RS12600 - hypothetical protein, at 72,637 to 72,927
_RS12600
HMPREF1058_RS12595: HMPREF1058_RS12595 - hypothetical protein, at 73,148 to 73,489
_RS12595
HMPREF1058_RS12590: HMPREF1058_RS12590 - transposase, at 73,548 to 74,468
_RS12590
Position (kb) 72
73 Strain fitness (log2 ratio) -3
-2
-1
0
1
2 at 71.677 kb on - strand at 71.703 kb on + strand at 71.704 kb on - strand at 71.843 kb on + strand, within HMPREF1058_RS12605 at 71.852 kb on + strand, within HMPREF1058_RS12605 at 71.961 kb on + strand at 71.990 kb on - strand, within HMPREF1058_RS12605 at 72.075 kb on + strand, within HMPREF1058_RS12605 at 72.075 kb on + strand, within HMPREF1058_RS12605 at 72.076 kb on - strand, within HMPREF1058_RS12605 at 72.096 kb on - strand, within HMPREF1058_RS12605 at 72.104 kb on - strand, within HMPREF1058_RS12605 at 72.143 kb on - strand, within HMPREF1058_RS12605 at 72.143 kb on - strand, within HMPREF1058_RS12605 at 72.157 kb on - strand, within HMPREF1058_RS12605 at 72.157 kb on - strand, within HMPREF1058_RS12605 at 72.161 kb on - strand, within HMPREF1058_RS12605 at 72.166 kb on - strand, within HMPREF1058_RS12605 at 72.177 kb on + strand, within HMPREF1058_RS12605 at 72.178 kb on - strand, within HMPREF1058_RS12605 at 72.178 kb on - strand, within HMPREF1058_RS12605 at 72.219 kb on + strand, within HMPREF1058_RS12605 at 72.228 kb on + strand at 72.229 kb on - strand at 72.229 kb on - strand at 72.229 kb on - strand at 72.271 kb on - strand at 72.273 kb on - strand at 72.276 kb on + strand at 72.276 kb on + strand at 72.302 kb on + strand at 72.321 kb on - strand at 72.342 kb on + strand at 72.467 kb on + strand, within HMPREF1058_RS20605 at 72.470 kb on - strand, within HMPREF1058_RS20605 at 72.474 kb on + strand, within HMPREF1058_RS20605 at 72.475 kb on - strand, within HMPREF1058_RS20605 at 72.477 kb on + strand, within HMPREF1058_RS20605 at 72.477 kb on + strand, within HMPREF1058_RS20605 at 72.511 kb on + strand, within HMPREF1058_RS20605 at 72.511 kb on + strand, within HMPREF1058_RS20605 at 72.553 kb on - strand at 72.587 kb on - strand at 72.598 kb on + strand at 72.599 kb on - strand at 72.721 kb on - strand, within HMPREF1058_RS12600 at 72.756 kb on + strand, within HMPREF1058_RS12600 at 72.791 kb on + strand, within HMPREF1058_RS12600 at 72.850 kb on - strand, within HMPREF1058_RS12600 at 72.856 kb on - strand, within HMPREF1058_RS12600 at 72.868 kb on + strand, within HMPREF1058_RS12600 at 72.869 kb on - strand, within HMPREF1058_RS12600 at 72.870 kb on + strand, within HMPREF1058_RS12600 at 72.876 kb on + strand, within HMPREF1058_RS12600 at 72.880 kb on + strand, within HMPREF1058_RS12600 at 72.883 kb on + strand, within HMPREF1058_RS12600 at 72.884 kb on - strand, within HMPREF1058_RS12600 at 72.892 kb on + strand, within HMPREF1058_RS12600 at 72.963 kb on - strand at 73.003 kb on + strand at 73.012 kb on + strand at 73.062 kb on - strand at 73.300 kb on + strand, within HMPREF1058_RS12595 at 73.483 kb on - strand at 73.647 kb on + strand, within HMPREF1058_RS12590 at 73.647 kb on + strand, within HMPREF1058_RS12590 at 73.647 kb on + strand, within HMPREF1058_RS12590 at 73.649 kb on + strand, within HMPREF1058_RS12590 at 73.690 kb on - strand, within HMPREF1058_RS12590 at 73.690 kb on - strand, within HMPREF1058_RS12590 at 73.707 kb on - strand, within HMPREF1058_RS12590 at 73.730 kb on + strand, within HMPREF1058_RS12590 at 73.730 kb on + strand, within HMPREF1058_RS12590 at 73.730 kb on + strand, within HMPREF1058_RS12590 at 73.730 kb on + strand, within HMPREF1058_RS12590 at 73.767 kb on - strand, within HMPREF1058_RS12590
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4 remove 71,677 - -1.3 71,703 + -1.7 71,704 - +0.2 71,843 + HMPREF1058_RS12605 0.28 -1.9 71,852 + HMPREF1058_RS12605 0.30 +1.7 71,961 + -0.3 71,990 - HMPREF1058_RS12605 0.52 -1.9 72,075 + HMPREF1058_RS12605 0.66 -0.3 72,075 + HMPREF1058_RS12605 0.66 +0.2 72,076 - HMPREF1058_RS12605 0.66 -0.0 72,096 - HMPREF1058_RS12605 0.69 +0.5 72,104 - HMPREF1058_RS12605 0.70 -0.3 72,143 - HMPREF1058_RS12605 0.76 +1.5 72,143 - HMPREF1058_RS12605 0.76 +0.0 72,157 - HMPREF1058_RS12605 0.79 -0.3 72,157 - HMPREF1058_RS12605 0.79 +0.1 72,161 - HMPREF1058_RS12605 0.79 +1.1 72,166 - HMPREF1058_RS12605 0.80 +0.5 72,177 + HMPREF1058_RS12605 0.82 -0.3 72,178 - HMPREF1058_RS12605 0.82 -0.4 72,178 - HMPREF1058_RS12605 0.82 +0.9 72,219 + HMPREF1058_RS12605 0.89 -0.2 72,228 + -0.3 72,229 - -0.4 72,229 - +1.2 72,229 - -0.6 72,271 - +0.3 72,273 - -2.6 72,276 + -1.3 72,276 + +2.7 72,302 + +1.8 72,321 - +0.0 72,342 + +1.2 72,467 + HMPREF1058_RS20605 0.57 +1.5 72,470 - HMPREF1058_RS20605 0.59 -0.8 72,474 + HMPREF1058_RS20605 0.60 -1.9 72,475 - HMPREF1058_RS20605 0.61 +0.1 72,477 + HMPREF1058_RS20605 0.62 -0.1 72,477 + HMPREF1058_RS20605 0.62 -3.1 72,511 + HMPREF1058_RS20605 0.76 -0.4 72,511 + HMPREF1058_RS20605 0.76 +1.3 72,553 - -2.6 72,587 - +0.3 72,598 + +0.0 72,599 - -0.1 72,721 - HMPREF1058_RS12600 0.29 -1.3 72,756 + HMPREF1058_RS12600 0.41 -0.3 72,791 + HMPREF1058_RS12600 0.53 -3.4 72,850 - HMPREF1058_RS12600 0.73 +1.7 72,856 - HMPREF1058_RS12600 0.75 -0.3 72,868 + HMPREF1058_RS12600 0.79 -2.0 72,869 - HMPREF1058_RS12600 0.80 -0.3 72,870 + HMPREF1058_RS12600 0.80 +2.6 72,876 + HMPREF1058_RS12600 0.82 +1.0 72,880 + HMPREF1058_RS12600 0.84 +1.9 72,883 + HMPREF1058_RS12600 0.85 +0.3 72,884 - HMPREF1058_RS12600 0.85 +1.4 72,892 + HMPREF1058_RS12600 0.88 +2.7 72,963 - +1.3 73,003 + +0.1 73,012 + -3.4 73,062 - +0.7 73,300 + HMPREF1058_RS12595 0.44 +0.6 73,483 - -0.2 73,647 + HMPREF1058_RS12590 0.11 +0.1 73,647 + HMPREF1058_RS12590 0.11 +1.7 73,647 + HMPREF1058_RS12590 0.11 -1.3 73,649 + HMPREF1058_RS12590 0.11 -1.9 73,690 - HMPREF1058_RS12590 0.15 -1.3 73,690 - HMPREF1058_RS12590 0.15 +1.2 73,707 - HMPREF1058_RS12590 0.17 -1.9 73,730 + HMPREF1058_RS12590 0.20 +1.3 73,730 + HMPREF1058_RS12590 0.20 -1.1 73,730 + HMPREF1058_RS12590 0.20 -0.4 73,730 + HMPREF1058_RS12590 0.20 -0.3 73,767 - HMPREF1058_RS12590 0.24 +2.7
Or see this region's nucleotide sequence