Strain Fitness in Sphingobium sp. HT1-2 around GFF1213

Experiment: EMM_noCarbon with Sucrose and Ammonium Sulfate

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 ntGFF1212 and GFF1213 overlap by 4 nucleotidesGFF1213 and GFF1214 are separated by 6 nucleotides GFF1212 - Histidine ammonia-lyase (EC 4.3.1.3), at 1,232,804 to 1,234,333 GFF1212 GFF1213 - N-formylglutamate deformylase (EC 3.5.1.68), at 1,234,330 to 1,235,142 GFF1213 GFF1214 - Urocanate hydratase (EC 4.2.1.49), at 1,235,149 to 1,236,816 GFF1214 Position (kb) 1234 1235 1236Strain fitness (log2 ratio) -2 -1 0 1 2at 1233.347 kb on + strand, within GFF1212at 1233.347 kb on - strand, within GFF1212at 1233.355 kb on + strand, within GFF1212at 1233.355 kb on + strand, within GFF1212at 1233.366 kb on + strand, within GFF1212at 1233.372 kb on + strand, within GFF1212at 1233.372 kb on + strand, within GFF1212at 1233.382 kb on + strand, within GFF1212at 1233.382 kb on + strand, within GFF1212at 1233.382 kb on + strand, within GFF1212at 1233.382 kb on + strand, within GFF1212at 1233.382 kb on + strand, within GFF1212at 1233.382 kb on + strand, within GFF1212at 1233.390 kb on - strand, within GFF1212at 1233.390 kb on - strand, within GFF1212at 1233.390 kb on - strand, within GFF1212at 1233.408 kb on + strand, within GFF1212at 1233.418 kb on + strand, within GFF1212at 1233.445 kb on + strand, within GFF1212at 1233.445 kb on + strand, within GFF1212at 1233.449 kb on - strand, within GFF1212at 1233.453 kb on - strand, within GFF1212at 1233.460 kb on + strand, within GFF1212at 1233.460 kb on + strand, within GFF1212at 1233.468 kb on - strand, within GFF1212at 1233.468 kb on - strand, within GFF1212at 1233.468 kb on - strand, within GFF1212at 1233.480 kb on - strand, within GFF1212at 1233.494 kb on + strand, within GFF1212at 1233.502 kb on - strand, within GFF1212at 1233.520 kb on + strand, within GFF1212at 1233.520 kb on + strand, within GFF1212at 1233.522 kb on + strand, within GFF1212at 1233.522 kb on + strand, within GFF1212at 1233.528 kb on - strand, within GFF1212at 1233.528 kb on - strand, within GFF1212at 1233.530 kb on + strand, within GFF1212at 1233.530 kb on + strand, within GFF1212at 1233.538 kb on - strand, within GFF1212at 1233.538 kb on - strand, within GFF1212at 1233.548 kb on - strand, within GFF1212at 1233.548 kb on - strand, within GFF1212at 1233.550 kb on + strand, within GFF1212at 1233.558 kb on - strand, within GFF1212at 1233.558 kb on - strand, within GFF1212at 1233.584 kb on - strand, within GFF1212at 1233.664 kb on + strand, within GFF1212at 1233.672 kb on - strand, within GFF1212at 1233.680 kb on - strand, within GFF1212at 1233.721 kb on + strand, within GFF1212at 1233.823 kb on - strand, within GFF1212at 1233.893 kb on - strand, within GFF1212at 1233.909 kb on + strand, within GFF1212at 1233.942 kb on - strand, within GFF1212at 1233.958 kb on + strand, within GFF1212at 1234.019 kb on - strand, within GFF1212at 1234.054 kb on + strand, within GFF1212at 1234.054 kb on - strand, within GFF1212at 1234.062 kb on - strand, within GFF1212at 1234.084 kb on + strand, within GFF1212at 1234.114 kb on + strand, within GFF1212at 1234.129 kb on + strand, within GFF1212at 1234.139 kb on + strand, within GFF1212at 1234.144 kb on + strand, within GFF1212at 1234.171 kb on - strand, within GFF1212at 1234.181 kb on + strandat 1234.183 kb on + strandat 1234.193 kb on + strandat 1234.193 kb on + strandat 1234.215 kb on - strandat 1234.225 kb on - strandat 1234.225 kb on - strandat 1234.225 kb on - strandat 1234.225 kb on - strandat 1234.228 kb on - strandat 1234.302 kb on - strandat 1234.315 kb on - strandat 1234.315 kb on - strandat 1234.315 kb on - strandat 1234.315 kb on - strandat 1234.330 kb on + strandat 1234.356 kb on + strandat 1234.356 kb on + strandat 1234.374 kb on - strandat 1234.379 kb on + strandat 1234.389 kb on + strandat 1234.431 kb on + strand, within GFF1213at 1234.432 kb on + strand, within GFF1213at 1234.439 kb on - strand, within GFF1213at 1234.461 kb on - strand, within GFF1213at 1234.468 kb on + strand, within GFF1213at 1234.473 kb on + strand, within GFF1213at 1234.473 kb on + strand, within GFF1213at 1234.473 kb on + strand, within GFF1213at 1234.473 kb on + strand, within GFF1213at 1234.473 kb on + strand, within GFF1213at 1234.476 kb on - strand, within GFF1213at 1234.476 kb on - strand, within GFF1213at 1234.481 kb on - strand, within GFF1213at 1234.481 kb on - strand, within GFF1213at 1234.481 kb on - strand, within GFF1213at 1234.481 kb on - strand, within GFF1213at 1234.481 kb on - strand, within GFF1213at 1234.481 kb on - strand, within GFF1213at 1234.481 kb on - strand, within GFF1213at 1234.487 kb on + strand, within GFF1213at 1234.532 kb on + strand, within GFF1213at 1234.564 kb on + strand, within GFF1213at 1234.565 kb on - strand, within GFF1213at 1234.572 kb on - strand, within GFF1213at 1234.572 kb on - strand, within GFF1213at 1234.574 kb on + strand, within GFF1213at 1234.574 kb on + strand, within GFF1213at 1234.574 kb on + strand, within GFF1213at 1234.574 kb on + strand, within GFF1213at 1234.574 kb on + strand, within GFF1213at 1234.582 kb on - strand, within GFF1213at 1234.582 kb on - strand, within GFF1213at 1234.584 kb on + strand, within GFF1213at 1234.584 kb on + strand, within GFF1213at 1234.589 kb on + strand, within GFF1213at 1234.592 kb on - strand, within GFF1213at 1234.592 kb on - strand, within GFF1213at 1234.592 kb on - strand, within GFF1213at 1234.592 kb on - strand, within GFF1213at 1234.597 kb on - strand, within GFF1213at 1234.599 kb on - strand, within GFF1213at 1234.622 kb on - strand, within GFF1213at 1234.622 kb on - strand, within GFF1213at 1234.629 kb on + strand, within GFF1213at 1234.637 kb on - strand, within GFF1213at 1234.646 kb on + strand, within GFF1213at 1234.686 kb on + strand, within GFF1213at 1234.686 kb on - strand, within GFF1213at 1234.693 kb on - strand, within GFF1213at 1234.713 kb on + strand, within GFF1213at 1234.727 kb on - strand, within GFF1213at 1234.750 kb on + strand, within GFF1213at 1234.781 kb on + strand, within GFF1213at 1234.781 kb on + strand, within GFF1213at 1234.789 kb on - strand, within GFF1213at 1234.794 kb on - strand, within GFF1213at 1234.800 kb on - strand, within GFF1213at 1234.810 kb on + strand, within GFF1213at 1234.826 kb on - strand, within GFF1213at 1234.826 kb on - strand, within GFF1213at 1234.861 kb on - strand, within GFF1213at 1234.902 kb on + strand, within GFF1213at 1234.949 kb on + strand, within GFF1213at 1234.957 kb on - strand, within GFF1213at 1234.958 kb on + strand, within GFF1213at 1234.958 kb on + strand, within GFF1213at 1235.039 kb on - strand, within GFF1213at 1235.039 kb on - strand, within GFF1213at 1235.060 kb on + strand, within GFF1213at 1235.082 kb on - strandat 1235.082 kb on - strandat 1235.084 kb on + strandat 1235.091 kb on - strandat 1235.103 kb on + strandat 1235.109 kb on + strandat 1235.117 kb on - strandat 1235.145 kb on - strandat 1235.175 kb on + strandat 1235.192 kb on + strandat 1235.230 kb on + strandat 1235.242 kb on + strandat 1235.364 kb on + strand, within GFF1214at 1235.383 kb on + strand, within GFF1214at 1235.403 kb on + strand, within GFF1214at 1235.415 kb on + strand, within GFF1214at 1235.415 kb on + strand, within GFF1214at 1235.415 kb on + strand, within GFF1214at 1235.423 kb on - strand, within GFF1214at 1235.423 kb on - strand, within GFF1214at 1235.423 kb on - strand, within GFF1214at 1235.423 kb on - strand, within GFF1214at 1235.437 kb on - strand, within GFF1214at 1235.477 kb on + strand, within GFF1214at 1235.480 kb on - strand, within GFF1214at 1235.482 kb on + strand, within GFF1214at 1235.482 kb on + strand, within GFF1214at 1235.539 kb on + strand, within GFF1214at 1235.542 kb on - strand, within GFF1214at 1235.588 kb on + strand, within GFF1214at 1235.591 kb on - strand, within GFF1214at 1235.596 kb on - strand, within GFF1214at 1235.596 kb on - strand, within GFF1214at 1235.681 kb on + strand, within GFF1214at 1235.787 kb on - strand, within GFF1214at 1235.826 kb on + strand, within GFF1214at 1235.883 kb on - strand, within GFF1214at 1235.914 kb on - strand, within GFF1214at 1235.920 kb on - strand, within GFF1214at 1235.937 kb on - strand, within GFF1214at 1235.937 kb on - strand, within GFF1214at 1235.942 kb on - strand, within GFF1214at 1235.950 kb on - strand, within GFF1214at 1235.950 kb on - strand, within GFF1214at 1236.027 kb on + strand, within GFF1214at 1236.042 kb on + strand, within GFF1214at 1236.045 kb on - strand, within GFF1214at 1236.047 kb on + strand, within GFF1214at 1236.051 kb on + strand, within GFF1214at 1236.138 kb on + strand, within GFF1214

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction EMM_noCarbon with Sucrose and Ammonium Sulfate
remove
1,233,347 + GFF1212 0.35 -0.8
1,233,347 - GFF1212 0.35 +0.4
1,233,355 + GFF1212 0.36 -0.7
1,233,355 + GFF1212 0.36 -1.6
1,233,366 + GFF1212 0.37 +0.7
1,233,372 + GFF1212 0.37 -1.2
1,233,372 + GFF1212 0.37 +0.4
1,233,382 + GFF1212 0.38 -1.2
1,233,382 + GFF1212 0.38 +1.1
1,233,382 + GFF1212 0.38 -0.2
1,233,382 + GFF1212 0.38 -0.1
1,233,382 + GFF1212 0.38 -1.4
1,233,382 + GFF1212 0.38 -0.2
1,233,390 - GFF1212 0.38 +0.2
1,233,390 - GFF1212 0.38 -0.3
1,233,390 - GFF1212 0.38 +1.0
1,233,408 + GFF1212 0.39 -0.2
1,233,418 + GFF1212 0.40 -1.6
1,233,445 + GFF1212 0.42 +0.8
1,233,445 + GFF1212 0.42 +2.2
1,233,449 - GFF1212 0.42 -2.0
1,233,453 - GFF1212 0.42 -1.0
1,233,460 + GFF1212 0.43 +1.8
1,233,460 + GFF1212 0.43 +0.3
1,233,468 - GFF1212 0.43 -0.8
1,233,468 - GFF1212 0.43 +1.7
1,233,468 - GFF1212 0.43 -1.2
1,233,480 - GFF1212 0.44 +1.4
1,233,494 + GFF1212 0.45 -0.5
1,233,502 - GFF1212 0.46 -0.1
1,233,520 + GFF1212 0.47 -2.0
1,233,520 + GFF1212 0.47 +0.1
1,233,522 + GFF1212 0.47 -1.7
1,233,522 + GFF1212 0.47 +0.2
1,233,528 - GFF1212 0.47 -0.2
1,233,528 - GFF1212 0.47 -1.1
1,233,530 + GFF1212 0.47 +1.0
1,233,530 + GFF1212 0.47 +0.2
1,233,538 - GFF1212 0.48 -0.6
1,233,538 - GFF1212 0.48 +0.2
1,233,548 - GFF1212 0.49 +0.8
1,233,548 - GFF1212 0.49 -2.6
1,233,550 + GFF1212 0.49 -0.5
1,233,558 - GFF1212 0.49 +1.8
1,233,558 - GFF1212 0.49 +0.3
1,233,584 - GFF1212 0.51 +1.1
1,233,664 + GFF1212 0.56 +0.9
1,233,672 - GFF1212 0.57 +0.5
1,233,680 - GFF1212 0.57 -0.4
1,233,721 + GFF1212 0.60 +0.2
1,233,823 - GFF1212 0.67 +1.4
1,233,893 - GFF1212 0.71 -0.9
1,233,909 + GFF1212 0.72 -0.2
1,233,942 - GFF1212 0.74 -0.1
1,233,958 + GFF1212 0.75 +0.7
1,234,019 - GFF1212 0.79 -1.2
1,234,054 + GFF1212 0.82 -0.3
1,234,054 - GFF1212 0.82 -0.4
1,234,062 - GFF1212 0.82 -1.6
1,234,084 + GFF1212 0.84 -0.1
1,234,114 + GFF1212 0.86 +0.5
1,234,129 + GFF1212 0.87 +0.2
1,234,139 + GFF1212 0.87 -0.5
1,234,144 + GFF1212 0.88 +0.6
1,234,171 - GFF1212 0.89 +0.5
1,234,181 + -2.0
1,234,183 + +0.8
1,234,193 + -0.3
1,234,193 + -0.5
1,234,215 - -1.9
1,234,225 - +0.0
1,234,225 - +0.4
1,234,225 - +0.2
1,234,225 - +0.1
1,234,228 - -1.1
1,234,302 - +0.4
1,234,315 - +0.9
1,234,315 - +0.0
1,234,315 - +0.3
1,234,315 - +1.0
1,234,330 + -0.3
1,234,356 + -0.3
1,234,356 + +0.9
1,234,374 - +1.1
1,234,379 + -0.1
1,234,389 + +0.5
1,234,431 + GFF1213 0.12 -0.9
1,234,432 + GFF1213 0.13 -1.4
1,234,439 - GFF1213 0.13 -0.3
1,234,461 - GFF1213 0.16 -1.0
1,234,468 + GFF1213 0.17 +0.1
1,234,473 + GFF1213 0.18 +2.5
1,234,473 + GFF1213 0.18 -1.2
1,234,473 + GFF1213 0.18 -1.5
1,234,473 + GFF1213 0.18 +0.3
1,234,473 + GFF1213 0.18 +0.6
1,234,476 - GFF1213 0.18 -0.4
1,234,476 - GFF1213 0.18 +0.4
1,234,481 - GFF1213 0.19 +0.1
1,234,481 - GFF1213 0.19 -0.2
1,234,481 - GFF1213 0.19 -0.5
1,234,481 - GFF1213 0.19 -0.9
1,234,481 - GFF1213 0.19 -0.6
1,234,481 - GFF1213 0.19 +0.1
1,234,481 - GFF1213 0.19 +0.3
1,234,487 + GFF1213 0.19 +0.7
1,234,532 + GFF1213 0.25 +0.4
1,234,564 + GFF1213 0.29 -1.0
1,234,565 - GFF1213 0.29 +0.4
1,234,572 - GFF1213 0.30 -0.2
1,234,572 - GFF1213 0.30 -1.0
1,234,574 + GFF1213 0.30 -0.6
1,234,574 + GFF1213 0.30 +0.5
1,234,574 + GFF1213 0.30 +1.4
1,234,574 + GFF1213 0.30 -0.5
1,234,574 + GFF1213 0.30 +1.8
1,234,582 - GFF1213 0.31 -0.9
1,234,582 - GFF1213 0.31 -0.6
1,234,584 + GFF1213 0.31 -0.0
1,234,584 + GFF1213 0.31 -0.3
1,234,589 + GFF1213 0.32 +0.4
1,234,592 - GFF1213 0.32 +0.1
1,234,592 - GFF1213 0.32 -0.8
1,234,592 - GFF1213 0.32 +0.2
1,234,592 - GFF1213 0.32 -0.7
1,234,597 - GFF1213 0.33 +0.1
1,234,599 - GFF1213 0.33 +0.4
1,234,622 - GFF1213 0.36 -1.9
1,234,622 - GFF1213 0.36 -1.1
1,234,629 + GFF1213 0.37 -0.6
1,234,637 - GFF1213 0.38 +0.1
1,234,646 + GFF1213 0.39 -0.3
1,234,686 + GFF1213 0.44 +0.4
1,234,686 - GFF1213 0.44 -1.4
1,234,693 - GFF1213 0.45 -2.2
1,234,713 + GFF1213 0.47 +0.5
1,234,727 - GFF1213 0.49 -1.5
1,234,750 + GFF1213 0.52 -0.2
1,234,781 + GFF1213 0.55 +1.1
1,234,781 + GFF1213 0.55 -1.4
1,234,789 - GFF1213 0.56 -0.8
1,234,794 - GFF1213 0.57 +0.9
1,234,800 - GFF1213 0.58 +0.0
1,234,810 + GFF1213 0.59 -1.1
1,234,826 - GFF1213 0.61 +0.4
1,234,826 - GFF1213 0.61 -0.4
1,234,861 - GFF1213 0.65 -1.7
1,234,902 + GFF1213 0.70 -0.8
1,234,949 + GFF1213 0.76 +0.8
1,234,957 - GFF1213 0.77 -1.8
1,234,958 + GFF1213 0.77 -1.2
1,234,958 + GFF1213 0.77 -0.9
1,235,039 - GFF1213 0.87 +1.1
1,235,039 - GFF1213 0.87 -0.6
1,235,060 + GFF1213 0.90 -0.9
1,235,082 - +0.4
1,235,082 - -0.6
1,235,084 + +0.6
1,235,091 - -0.2
1,235,103 + +0.2
1,235,109 + +0.3
1,235,117 - -0.4
1,235,145 - +1.3
1,235,175 + -0.8
1,235,192 + +0.3
1,235,230 + +0.4
1,235,242 + +1.5
1,235,364 + GFF1214 0.13 +0.2
1,235,383 + GFF1214 0.14 +0.4
1,235,403 + GFF1214 0.15 +0.6
1,235,415 + GFF1214 0.16 -0.9
1,235,415 + GFF1214 0.16 -0.6
1,235,415 + GFF1214 0.16 -2.1
1,235,423 - GFF1214 0.16 +0.5
1,235,423 - GFF1214 0.16 +0.9
1,235,423 - GFF1214 0.16 +2.1
1,235,423 - GFF1214 0.16 +1.2
1,235,437 - GFF1214 0.17 +0.6
1,235,477 + GFF1214 0.20 -1.0
1,235,480 - GFF1214 0.20 +1.5
1,235,482 + GFF1214 0.20 +0.9
1,235,482 + GFF1214 0.20 +0.2
1,235,539 + GFF1214 0.23 -0.6
1,235,542 - GFF1214 0.24 -0.9
1,235,588 + GFF1214 0.26 -0.9
1,235,591 - GFF1214 0.26 +1.7
1,235,596 - GFF1214 0.27 -1.1
1,235,596 - GFF1214 0.27 +1.4
1,235,681 + GFF1214 0.32 -1.7
1,235,787 - GFF1214 0.38 -0.1
1,235,826 + GFF1214 0.41 -0.5
1,235,883 - GFF1214 0.44 -1.6
1,235,914 - GFF1214 0.46 -0.4
1,235,920 - GFF1214 0.46 -0.2
1,235,937 - GFF1214 0.47 -0.4
1,235,937 - GFF1214 0.47 -1.1
1,235,942 - GFF1214 0.48 -0.3
1,235,950 - GFF1214 0.48 -0.9
1,235,950 - GFF1214 0.48 -0.2
1,236,027 + GFF1214 0.53 -2.1
1,236,042 + GFF1214 0.54 +0.7
1,236,045 - GFF1214 0.54 +0.0
1,236,047 + GFF1214 0.54 +1.1
1,236,051 + GFF1214 0.54 -0.5
1,236,138 + GFF1214 0.59 +1.5

Or see this region's nucleotide sequence