mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 28 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP006584 | 1,643,582 | 0 | G | A | 70.8% | 164.2 / 94.8 | 120 | intergenic (‑242/‑61) | LY180_07760/LY180_07765 | sulfatase/transposase |
| * | CP006584 | 3,850,024 | 0 | C | T | 66.4% | 130.0 / 124.4 | 131 | P363S (CCA→TCA) | LY180_18350 | transcriptional regulator |
| * | CP006584 | 1,563,136 | 0 | T | C | 57.1% | ‑6.7 / 21.3 | 21 | N139N (AAT→AAC) | LY180_07445 | transposase IS609 |
| * | CP006584 | 269,116 | 0 | C | T | 50.0% | ‑4.3 / 105.3 | 76 | R121R (CGC→CGT) | LY180_01180 | hypothetical protein |
| * | CP006584 | 269,452 | 0 | C | T | 43.4% | 26.2 / 136.7 | 113 | Q60* (CAA→TAA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,438 | 0 | T | C | 42.9% | 40.5 / 136.9 | 112 | L55P (CTC→CCC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,443 | 0 | T | G | 42.9% | 23.4 / 162.9 | 112 | F57V (TTT→GTT) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,453 | 0 | A | G | 42.9% | 38.2 / 136.3 | 112 | Q60R (CAA→CGA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,400 | 0 | G | A | 42.0% | 52.4 / 116.9 | 100 | E42E (GAG→GAA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,403 | 0 | T | C | 40.6% | 51.5 / 114.3 | 102 | G43G (GGT→GGC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 3,513,965 | 0 | T | C | 39.6% | 22.3 / 57.2 | 53 | intergenic (‑141/+198) | tldD/LY180_16725 | protease TldD/membrane protein |
| * | CP006584 | 269,041 | 0 | T | C | 39.1% | 33.3 / 72.2 | 64 | D96D (GAT→GAC) | LY180_01180 | hypothetical protein |
| * | CP006584 | 269,044 | 0 | T | C | 38.1% | 38.8 / 66.2 | 64 | C97C (TGT→TGC) | LY180_01180 | hypothetical protein |
| * | CP006584 | 269,492 | 0 | C | T | 36.1% | 94.4 / 116.8 | 119 | T73I (ACC→ATC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 4,253,902 | 0 | C | T | 35.9% | 156.7 / 125.4 | 132 | intergenic (+24/‑40) | LY180_20335/LY180_20340 | hypothetical protein/hypothetical protein |
| * | CP006584 | 4,253,976 | 0 | T | A | 35.8% | 184.0 / 163.4 | 148 | F12Y (TTC→TAC) | LY180_20340 | hypothetical protein |
| * | CP006584 | 4,253,879 | 0 | G | A | 35.7% | 155.9 / 122.6 | 130 | intergenic (+1/‑63) | LY180_20335/LY180_20340 | hypothetical protein/hypothetical protein |
| * | CP006584 | 268,981 | 0 | C | A | 32.3% | 89.1 / 51.0 | 63 | S76R (AGC→AGA) | LY180_01180 | hypothetical protein |
| * | CP006584 | 1,310,832 | 0 | T | G | 30.8% | 118.7 / 60.3 | 79 | intergenic (‑288/+141) | LY180_06180/LY180_06185 | hypothetical protein/hypothetical protein |
| * | CP006584 | 268,971 | 0 | C | T | 30.5% | 80.8 / 41.4 | 59 | T73I (ACC→ATC) | LY180_01180 | hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 15 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP006584 | = 4739815 | 78 (1.210) | 14 (0.220) | 14/566 | 3.8 | 17.7% | intergenic (+56/‑424) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A |
| ? | CP006584 | = 4740111 | 55 (0.880) | intergenic (+352/‑128) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A | |||||
| * | ? | CP006584 | = 2253835 | 35 (0.540) | 10 (0.160) | 10/554 | 4.8 | 20.4% | coding (52/414 nt) | LY180_10760 | hypothetical protein |
| ? | CP006584 | = 2255646 | 45 (0.740) | coding (842/1284 nt) | LY180_10775 | tail protein | |||||
| * | ? | CP006584 | 2253821 = | 34 (0.530) | 8 (0.130) | 8/554 | 5.4 | 17.2% | coding (38/414 nt) | LY180_10760 | hypothetical protein |
| ? | CP006584 | 2255662 = | 45 (0.740) | coding (826/1284 nt) | LY180_10775 | tail protein | |||||
| * | ? | CP006584 | 4739807 = | 75 (1.160) | 7 (0.110) | 7/566 | 5.9 | 9.9% | intergenic (+48/‑432) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A |
| ? | CP006584 | 4740121 = | 55 (0.880) | intergenic (+362/‑118) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A | |||||
| * | ? | CP006584 | = 240766 | 56 (0.930) | 9 (0.150) +TCTGATCTTTATGT |
3/520 | 7.4 | 13.2% | coding (116/483 nt) | LY180_01075 | Hcp |
| ? | CP006584 | 240767 = | 65 (1.010) | coding (115/483 nt) | LY180_01075 | Hcp | |||||
| * | ? | CP006584 | = 3864653 | 114 (1.770) | 3 (0.050) | 3/580 | 7.9 | 2.6% | intergenic (+1/+166) | araD/LY180_18430 | L‑ribulose‑5‑phosphate 4‑epimerase/hypothetical protein |
| ? | CP006584 | 4125367 = | 111 (1.740) | coding (1216/1236 nt) | LY180_19680 | arylsulfatase | |||||
| * | ? | CP006584 | 2764018 = | 38 (0.590) | 3 (0.050) | 3/574 | 7.9 | 7.4% | coding (608/714 nt) | LY180_13105 | membrane protein |
| ? | CP006584 | 2764081 = | 38 (0.600) | coding (545/714 nt) | LY180_13105 | membrane protein | |||||
| * | ? | CP006584 | 371993 = | 78 (1.210) | 3 (0.050) | 3/572 | 7.9 | 3.8% | intergenic (‑55/‑68) | LY180_01810/LY180_01815 | xanthine dehydrogenase subunit C/hypothetical protein |
| ? | CP006584 | 372016 = | 77 (1.220) | intergenic (‑78/‑45) | LY180_01810/LY180_01815 | xanthine dehydrogenase subunit C/hypothetical protein | |||||
| * | ? | CP006584 | = 3055436 | 80 (1.240) | 3 (0.050) | 3/584 | 8.0 | 3.6% | coding (2471/3369 nt) | recC | exonuclease V subunit gamma |
| ? | CP006584 | 4348960 = | 79 (1.230) | coding (1236/1845 nt) | btuB | vitamin B12/cobalamin outer membrane transporter | |||||
| * | ? | CP006584 | = 1732346 | 56 (0.870) | 3 (0.050) | 3/584 | 8.0 | 5.1% | coding (1061/1296 nt) | LY180_08220 | integrase |
| ? | CP006584 | = 2803335 | NA (NA) | noncoding (820/2931 nt) | LY180_13285 | 23S ribosomal RNA | |||||