Strain Fitness in Pseudomonas putida KT2440 around PP_0325

Experiment: Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X

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 ntPP_0323 and PP_0324 are separated by 14 nucleotidesPP_0324 and PP_0325 overlap by 4 nucleotidesPP_0325 and PP_0326 are separated by 74 nucleotidesPP_0326 and PP_0327 are separated by 11 nucleotides PP_0323: PP_0323 - sarcosine oxidase subunit beta, at 388,130 to 389,380 _0323 PP_0324: PP_0324 - sarcosine oxidase subunit delta, at 389,395 to 389,730 _0324 PP_0325: PP_0325 - sarcosine oxidase subunit alpha, at 389,727 to 392,741 _0325 PP_0326: PP_0326 - sarcosine oxidase subunit gamma, at 392,816 to 393,448 _0326 PP_0327: PP_0327 - formyltetrahydrofolate deformylase, at 393,460 to 394,317 _0327 Position (kb) 389 390 391 392 393Strain fitness (log2 ratio) -2 -1 0 1 2at 388.976 kb on + strand, within PP_0323at 388.976 kb on + strand, within PP_0323at 389.148 kb on + strand, within PP_0323at 389.148 kb on + strand, within PP_0323at 389.149 kb on - strand, within PP_0323at 389.149 kb on - strand, within PP_0323at 389.330 kb on + strandat 389.330 kb on + strandat 389.330 kb on + strandat 389.330 kb on + strandat 389.403 kb on + strandat 389.404 kb on - strandat 389.404 kb on - strandat 389.404 kb on - strandat 389.404 kb on - strandat 389.517 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.521 kb on + strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.522 kb on - strand, within PP_0324at 389.530 kb on + strand, within PP_0324at 389.530 kb on + strand, within PP_0324at 389.530 kb on + strand, within PP_0324at 389.530 kb on + strand, within PP_0324at 389.530 kb on + strand, within PP_0324at 389.593 kb on + strand, within PP_0324at 389.594 kb on - strand, within PP_0324at 389.641 kb on + strand, within PP_0324at 389.642 kb on - strand, within PP_0324at 389.727 kb on - strandat 389.740 kb on - strandat 389.740 kb on - strandat 389.763 kb on - strandat 389.808 kb on + strandat 389.808 kb on + strandat 389.809 kb on - strandat 389.876 kb on + strandat 389.876 kb on + strandat 389.876 kb on + strandat 389.877 kb on - strandat 389.886 kb on + strandat 389.887 kb on - strandat 389.887 kb on - strandat 389.964 kb on - strandat 390.003 kb on + strandat 390.004 kb on - strandat 390.108 kb on + strand, within PP_0325at 390.108 kb on + strand, within PP_0325at 390.111 kb on + strand, within PP_0325at 390.126 kb on + strand, within PP_0325at 390.127 kb on - strand, within PP_0325at 390.151 kb on - strand, within PP_0325at 390.151 kb on - strand, within PP_0325at 390.159 kb on + strand, within PP_0325at 390.160 kb on - strand, within PP_0325at 390.160 kb on - strand, within PP_0325at 390.167 kb on + strand, within PP_0325at 390.167 kb on + strand, within PP_0325at 390.168 kb on - strand, within PP_0325at 390.216 kb on + strand, within PP_0325at 390.216 kb on + strand, within PP_0325at 390.216 kb on + strand, within PP_0325at 390.217 kb on - strand, within PP_0325at 390.217 kb on - strand, within PP_0325at 390.222 kb on + strand, within PP_0325at 390.222 kb on + strand, within PP_0325at 390.222 kb on + strand, within PP_0325at 390.222 kb on + strand, within PP_0325at 390.222 kb on + strand, within PP_0325at 390.223 kb on - strand, within PP_0325at 390.482 kb on + strand, within PP_0325at 390.483 kb on - strand, within PP_0325at 390.586 kb on + strand, within PP_0325at 390.622 kb on - strand, within PP_0325at 390.665 kb on - strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.672 kb on + strand, within PP_0325at 390.673 kb on - strand, within PP_0325at 390.712 kb on + strand, within PP_0325at 390.713 kb on - strand, within PP_0325at 390.853 kb on + strand, within PP_0325at 391.110 kb on - strand, within PP_0325at 391.122 kb on + strand, within PP_0325at 391.122 kb on + strand, within PP_0325at 391.122 kb on + strand, within PP_0325at 391.122 kb on + strand, within PP_0325at 391.123 kb on - strand, within PP_0325at 391.123 kb on - strand, within PP_0325at 391.384 kb on - strand, within PP_0325at 391.384 kb on - strand, within PP_0325at 391.485 kb on - strand, within PP_0325at 391.506 kb on + strand, within PP_0325at 391.506 kb on + strand, within PP_0325at 391.506 kb on + strand, within PP_0325at 391.518 kb on - strand, within PP_0325at 391.647 kb on + strand, within PP_0325at 391.648 kb on - strand, within PP_0325at 391.795 kb on - strand, within PP_0325at 391.795 kb on - strand, within PP_0325at 391.795 kb on - strand, within PP_0325at 391.945 kb on + strand, within PP_0325at 391.946 kb on - strand, within PP_0325at 391.946 kb on - strand, within PP_0325at 391.965 kb on + strand, within PP_0325at 391.965 kb on + strand, within PP_0325at 391.966 kb on - strand, within PP_0325at 391.966 kb on - strand, within PP_0325at 391.998 kb on + strand, within PP_0325at 391.998 kb on + strand, within PP_0325at 391.998 kb on + strand, within PP_0325at 391.998 kb on + strand, within PP_0325at 391.998 kb on + strand, within PP_0325at 391.999 kb on - strand, within PP_0325at 392.162 kb on + strand, within PP_0325at 392.162 kb on + strand, within PP_0325at 392.162 kb on + strand, within PP_0325at 392.162 kb on + strand, within PP_0325at 392.163 kb on - strand, within PP_0325at 392.163 kb on - strand, within PP_0325at 392.187 kb on + strand, within PP_0325at 392.188 kb on - strand, within PP_0325at 392.188 kb on - strand, within PP_0325at 392.211 kb on + strand, within PP_0325at 392.211 kb on + strand, within PP_0325at 392.211 kb on + strand, within PP_0325at 392.211 kb on + strand, within PP_0325at 392.212 kb on - strand, within PP_0325at 392.212 kb on - strand, within PP_0325at 392.212 kb on - strand, within PP_0325at 392.256 kb on + strand, within PP_0325at 392.257 kb on - strand, within PP_0325at 392.293 kb on + strand, within PP_0325at 392.293 kb on + strand, within PP_0325at 392.293 kb on + strand, within PP_0325at 392.293 kb on + strand, within PP_0325at 392.293 kb on + strand, within PP_0325at 392.294 kb on - strand, within PP_0325at 392.574 kb on + strandat 392.575 kb on - strandat 392.596 kb on - strandat 392.740 kb on - strandat 392.811 kb on - strandat 392.905 kb on - strand, within PP_0326at 392.905 kb on - strand, within PP_0326at 393.260 kb on + strand, within PP_0326at 393.260 kb on + strand, within PP_0326at 393.261 kb on - strand, within PP_0326at 393.261 kb on - strand, within PP_0326at 393.261 kb on - strand, within PP_0326at 393.261 kb on - strand, within PP_0326at 393.446 kb on + strandat 393.446 kb on + strandat 393.446 kb on + strandat 393.446 kb on + strandat 393.447 kb on - strandat 393.539 kb on - strandat 393.539 kb on - strandat 393.560 kb on - strand, within PP_0327

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X
remove
388,976 + PP_0323 0.68 +2.0
388,976 + PP_0323 0.68 +0.2
389,148 + PP_0323 0.81 -0.6
389,148 + PP_0323 0.81 -0.5
389,149 - PP_0323 0.81 +0.2
389,149 - PP_0323 0.81 +0.0
389,330 + +0.7
389,330 + +0.2
389,330 + +1.3
389,330 + +0.3
389,403 + +0.3
389,404 - +0.3
389,404 - -0.9
389,404 - +0.1
389,404 - -0.1
389,517 + PP_0324 0.36 +0.4
389,521 + PP_0324 0.38 -1.3
389,521 + PP_0324 0.38 +0.1
389,521 + PP_0324 0.38 -1.5
389,521 + PP_0324 0.38 -1.2
389,521 + PP_0324 0.38 +0.2
389,521 + PP_0324 0.38 -0.8
389,521 + PP_0324 0.38 -0.2
389,521 + PP_0324 0.38 +0.2
389,521 + PP_0324 0.38 +0.7
389,521 + PP_0324 0.38 +0.6
389,521 + PP_0324 0.38 +0.4
389,522 - PP_0324 0.38 +0.0
389,522 - PP_0324 0.38 +0.0
389,522 - PP_0324 0.38 -0.0
389,522 - PP_0324 0.38 -0.2
389,522 - PP_0324 0.38 +0.1
389,522 - PP_0324 0.38 -0.1
389,522 - PP_0324 0.38 -0.1
389,522 - PP_0324 0.38 -0.0
389,522 - PP_0324 0.38 -0.6
389,530 + PP_0324 0.40 +0.9
389,530 + PP_0324 0.40 +1.2
389,530 + PP_0324 0.40 +0.5
389,530 + PP_0324 0.40 +0.6
389,530 + PP_0324 0.40 -0.2
389,593 + PP_0324 0.59 -0.1
389,594 - PP_0324 0.59 -1.1
389,641 + PP_0324 0.73 -0.8
389,642 - PP_0324 0.74 -0.8
389,727 - +0.1
389,740 - -0.0
389,740 - +0.3
389,763 - -0.8
389,808 + -0.4
389,808 + +0.2
389,809 - +0.2
389,876 + -0.1
389,876 + +0.4
389,876 + -0.7
389,877 - +0.2
389,886 + +0.2
389,887 - +0.8
389,887 - -0.9
389,964 - -0.3
390,003 + -0.3
390,004 - -0.2
390,108 + PP_0325 0.13 -0.6
390,108 + PP_0325 0.13 +0.5
390,111 + PP_0325 0.13 +1.0
390,126 + PP_0325 0.13 -0.9
390,127 - PP_0325 0.13 -0.1
390,151 - PP_0325 0.14 +0.1
390,151 - PP_0325 0.14 -0.1
390,159 + PP_0325 0.14 +0.2
390,160 - PP_0325 0.14 -0.1
390,160 - PP_0325 0.14 +0.7
390,167 + PP_0325 0.15 -0.4
390,167 + PP_0325 0.15 +1.2
390,168 - PP_0325 0.15 +0.1
390,216 + PP_0325 0.16 +0.3
390,216 + PP_0325 0.16 -0.3
390,216 + PP_0325 0.16 +0.1
390,217 - PP_0325 0.16 +0.8
390,217 - PP_0325 0.16 +0.0
390,222 + PP_0325 0.16 +0.9
390,222 + PP_0325 0.16 +0.1
390,222 + PP_0325 0.16 +0.9
390,222 + PP_0325 0.16 +0.1
390,222 + PP_0325 0.16 +0.0
390,223 - PP_0325 0.16 +0.6
390,482 + PP_0325 0.25 +0.3
390,483 - PP_0325 0.25 +0.6
390,586 + PP_0325 0.28 -0.3
390,622 - PP_0325 0.30 +0.1
390,665 - PP_0325 0.31 +0.4
390,672 + PP_0325 0.31 +0.7
390,672 + PP_0325 0.31 +0.3
390,672 + PP_0325 0.31 -0.1
390,672 + PP_0325 0.31 +0.2
390,672 + PP_0325 0.31 +0.3
390,672 + PP_0325 0.31 +1.2
390,672 + PP_0325 0.31 -2.2
390,672 + PP_0325 0.31 -0.9
390,672 + PP_0325 0.31 -0.4
390,672 + PP_0325 0.31 -0.6
390,673 - PP_0325 0.31 +0.4
390,712 + PP_0325 0.33 +0.2
390,713 - PP_0325 0.33 -0.1
390,853 + PP_0325 0.37 +0.5
391,110 - PP_0325 0.46 -0.6
391,122 + PP_0325 0.46 +0.2
391,122 + PP_0325 0.46 +1.1
391,122 + PP_0325 0.46 -0.1
391,122 + PP_0325 0.46 +0.5
391,123 - PP_0325 0.46 -0.4
391,123 - PP_0325 0.46 +0.0
391,384 - PP_0325 0.55 -0.4
391,384 - PP_0325 0.55 -1.1
391,485 - PP_0325 0.58 +0.4
391,506 + PP_0325 0.59 -0.3
391,506 + PP_0325 0.59 -0.2
391,506 + PP_0325 0.59 +0.1
391,518 - PP_0325 0.59 +1.2
391,647 + PP_0325 0.64 +0.2
391,648 - PP_0325 0.64 -1.5
391,795 - PP_0325 0.69 +0.5
391,795 - PP_0325 0.69 +0.5
391,795 - PP_0325 0.69 -0.7
391,945 + PP_0325 0.74 -1.2
391,946 - PP_0325 0.74 -1.8
391,946 - PP_0325 0.74 +0.1
391,965 + PP_0325 0.74 +0.4
391,965 + PP_0325 0.74 -0.4
391,966 - PP_0325 0.74 +0.3
391,966 - PP_0325 0.74 -0.5
391,998 + PP_0325 0.75 -0.0
391,998 + PP_0325 0.75 +0.5
391,998 + PP_0325 0.75 -0.8
391,998 + PP_0325 0.75 +0.7
391,998 + PP_0325 0.75 -1.4
391,999 - PP_0325 0.75 +0.8
392,162 + PP_0325 0.81 +0.4
392,162 + PP_0325 0.81 -0.5
392,162 + PP_0325 0.81 +0.5
392,162 + PP_0325 0.81 -0.8
392,163 - PP_0325 0.81 -0.3
392,163 - PP_0325 0.81 -0.8
392,187 + PP_0325 0.82 +0.1
392,188 - PP_0325 0.82 -0.3
392,188 - PP_0325 0.82 -0.8
392,211 + PP_0325 0.82 -1.9
392,211 + PP_0325 0.82 +0.5
392,211 + PP_0325 0.82 -0.3
392,211 + PP_0325 0.82 -0.4
392,212 - PP_0325 0.82 -0.2
392,212 - PP_0325 0.82 -0.3
392,212 - PP_0325 0.82 -0.5
392,256 + PP_0325 0.84 +0.7
392,257 - PP_0325 0.84 -0.6
392,293 + PP_0325 0.85 -0.6
392,293 + PP_0325 0.85 +1.4
392,293 + PP_0325 0.85 +0.4
392,293 + PP_0325 0.85 +0.0
392,293 + PP_0325 0.85 -0.1
392,294 - PP_0325 0.85 +1.1
392,574 + +0.5
392,575 - -1.1
392,596 - -0.5
392,740 - +0.9
392,811 - +0.3
392,905 - PP_0326 0.14 +0.2
392,905 - PP_0326 0.14 +0.0
393,260 + PP_0326 0.70 -0.1
393,260 + PP_0326 0.70 +0.0
393,261 - PP_0326 0.70 -0.4
393,261 - PP_0326 0.70 +0.2
393,261 - PP_0326 0.70 +0.4
393,261 - PP_0326 0.70 +0.7
393,446 + +0.9
393,446 + +0.1
393,446 + -0.2
393,446 + +0.3
393,447 - +0.3
393,539 - -0.2
393,539 - +0.6
393,560 - PP_0327 0.12 +0.0

Or see this region's nucleotide sequence