mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.30.1 revision 4379201f728c
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 900 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | DH1 | 3,513,065 | 0 | G | T | 46.4% | 101.3 / 69.7 | 110 | L267F (TTG→TTT) | cynR | transcriptional regulator |
| * | DH1 | 2,726,166 | 0 | A | C | 44.4% | 181.4 / 87.1 | 127 | Y92D (TAC→GAC) | pabC | 4‑amino‑4‑deoxychorismate lyase |
| * | DH1 | 677,328 | 0 | G | A | 42.2% | 210.4 / 108.5 | 166 | intergenic (‑31/‑179) | ttdA/ttdR | tartrate dehydratase subunit alpha/transcriptional activator TtdR |
| * | DH1 | 899,322 | 0 | T | G | 41.3% | 276.0 / 40.4 | 138 | G384G (GGT→GGG) | yqeF | acetyl‑CoA acetyltransferase |
| * | DH1 | 2,782,158 | 0 | T | C | 40.3% | 216.5 / 28.8 | 139 | noncoding (72/88 nt) | ECDH1_RS13860 | tRNA‑Ser |
| * | DH1 | 2,716,368 | 0 | G | A | 39.3% | 167.2 / 75.6 | 112 | L38F (CTC→TTC) | thiK | thiamine kinase |
| * | DH1 | 3,513,075 | 0 | A | G | 39.1% | 159.1 / 37.6 | 115 | K271E (AAA→GAA) | cynR | transcriptional regulator |
| * | DH1 | 3,571,995 | 0 | T | G | 39.1% | 240.7 / 43.2 | 128 | Y659D (TAT→GAT) | paoC | PaoABC aldehyde oxidoreductase Moco‑containing subunit |
| * | DH1 | 3,281,543 | 0 | A | C | 38.8% | 313.5 / 31.9 | 152 | V288G (GTG→GGG) | cusA | cation efflux system protein CusA |
| * | DH1 | 2,655,882 | 0 | C | T | 38.6% | 203.3 / 78.1 | 145 | F13F (TTC→TTT) | ymgD | hypothetical protein |
| * | DH1 | 1,455,529 | 0 | T | G | 38.1% | 327.6 / 29.9 | 155 | Y40S (TAC→TCC) | folX | D‑erythro‑7,8‑dihydroneopterin triphosphate epimerase |
| * | DH1 | 1,550,522 | 0 | A | C | 37.8% | 311.0 / 11.7 | 144 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | DH1 | 1,628,435 | 0 | G | T | 37.7% | 256.0 / 79.5 | 146 | V37F (GTT→TTT) | lysP | lysine‑specific permease |
| * | DH1 | 440,487 | 0 | T | G | 37.4% | 295.3 / 47.3 | 147 | V274G (GTA→GGA) | secY | protein translocase subunit SecY |
| * | DH1 | 4,181,790 | 0 | T | G | 37.1% | 402.6 / 29.4 | 178 | V161G (GTG→GGG) | basS | two‑component sensor histidine kinase |
| * | DH1 | 2,255,662 | 0 | C | T | 36.7% | 175.3 / 90.7 | 128 | intergenic (+144/+75) | dgcZ/yneM | diguanylate cyclase/hypothetical protein |
| * | DH1 | 140,106 | 0 | T | G | 36.7% | 303.3 / 30.4 | 139 | T309P (ACC→CCC) | yiaK | 2,3‑diketo‑L‑gulonate reductase |
| * | DH1 | 2,716,362 | 0 | C | A | 36.7% | 243.0 / 53.1 | 120 | E40* (GAA→TAA) | thiK | thiamine kinase |
| * | DH1 | 1,365,203 | 0 | T | G | 36.6% | 372.6 / 20.5 | 165 | V313G (GTG→GGG) | mntH | divalent metal cation transporter |
| * | DH1 | 4,135,779 | 0 | T | G | 36.4% | 340.3 / 24.5 | 160 | V48G (GTA→GGA) | ampC | BlaEC family class C beta‑lactamase |
| Marginal new junction evidence (lowest skew 10 of 22 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | DH1 | = 2668875 | 87 (0.530) | 71 (0.490) | 62/260 | 3.6 | 50.8% | pseudogene (20/345 nt) | pinE | hypothetical protein |
| ? | DH1 | = 2670672 | 60 (0.410) | coding (306/789 nt) | stfP | integrase | |||||
| * | ? | DH1 | 2668875 = | 70 (0.480) | 70 (0.480) | 61/260 | 3.8 | 50.2% | pseudogene (20/345 nt) | pinE | hypothetical protein |
| ? | DH1 | 2670674 = | NA (NA) | noncoding (1/242 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 2567932 | 155 (0.950) | 23 (0.140) | 15/292 | 18.3 | 12.9% | coding (657/720 nt) | tonB | protein TonB |
| ? | DH1 | = 3851581 | NA (NA) | noncoding (769/769 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 2567931 | 155 (0.950) | 18 (0.110) | 14/290 | 18.7 | 10.4% | coding (658/720 nt) | tonB | protein TonB |
| ? | DH1 | 2830573 = | NA (NA) | noncoding (4/773 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 3703414 | 155 (0.950) | 12 (0.080) | 12/282 | 19.4 | 8.0% | coding (480/2244 nt) | fhuA | ferrichrome‑iron receptor |
| ? | DH1 | 3703558 = | 126 (0.800) | coding (336/2244 nt) | fhuA | ferrichrome‑iron receptor | |||||
| * | ? | DH1 | = 2567917 | 158 (0.970) | 17 (0.100) | 13/292 | 19.4 | 9.7% | coding (672/720 nt) | tonB | protein TonB |
| ? | DH1 | = 3971755 | NA (NA) | noncoding (768/770 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 1405090 | NA (NA) | 58 (0.390) | 9/262 | 20.2 | 45.3% | noncoding (242/242 nt) | repeat_region | repeat region |
| ? | DH1 | 2668875 = | 70 (0.480) | pseudogene (20/345 nt) | pinE | hypothetical protein | |||||
| * | ? | DH1 | = 2567917 | 158 (0.970) | 13 (0.080) | 10/292 | 21.1 | 7.6% | coding (672/720 nt) | tonB | protein TonB |
| ? | DH1 | 3580753 = | NA (NA) | noncoding (3/976 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 2568185 | 134 (0.820) | 12 (0.070) | 9/292 | 21.8 | 8.2% | coding (404/720 nt) | tonB | protein TonB |
| ? | DH1 | 3850814 = | NA (NA) | noncoding (2/769 nt) | repeat_region | repeat region | |||||
| * | ? | DH1 | = 2568185 | 134 (0.820) | 11 (0.070) | 9/292 | 21.8 | 7.6% | coding (404/720 nt) | tonB | protein TonB |
| ? | DH1 | 3580753 = | NA (NA) | noncoding (3/976 nt) | repeat_region | repeat region | |||||