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 24 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 | 64.4% | 94.1 / 95.9 | 104 | intergenic (‑242/‑61) | LY180_07760/LY180_07765 | sulfatase/transposase |
| * | CP006584 | 3,849,298 | 0 | C | T | 58.5% | 42.8 / 91.2 | 84 | R121C (CGC→TGC) | LY180_18350 | transcriptional regulator |
| * | CP006584 | 1,563,237 | 0 | T | C | 55.9% | ‑6.4 / 37.1 | 34 | V173A (GTT→GCT) | LY180_07445 | transposase IS609 |
| * | CP006584 | 269,438 | 0 | T | C | 48.0% | 3.2 / 133.4 | 98 | L55P (CTC→CCC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,452 | 0 | C | T | 45.9% | 24.9 / 124.5 | 99 | Q60* (CAA→TAA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 3,513,965 | 0 | T | C | 45.7% | ‑2.3 / 43.1 | 35 | intergenic (‑141/+198) | tldD/LY180_16725 | protease TldD/membrane protein |
| * | CP006584 | 269,400 | 0 | G | A | 45.1% | 31.5 / 110.3 | 91 | E42E (GAG→GAA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,403 | 0 | T | C | 45.1% | 21.7 / 120.7 | 93 | G43G (GGT→GGC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,443 | 0 | T | G | 44.9% | ‑6.2 / 154.2 | 98 | F57V (TTT→GTT) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,453 | 0 | A | G | 44.9% | 17.9 / 128.3 | 99 | Q60R (CAA→CGA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,492 | 0 | C | T | 43.6% | 32.5 / 120.8 | 101 | T73I (ACC→ATC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 4,253,879 | 0 | G | A | 39.7% | 77.1 / 77.0 | 78 | intergenic (+1/‑63) | LY180_20335/LY180_20340 | hypothetical protein/hypothetical protein |
| * | CP006584 | 4,253,902 | 0 | C | T | 38.6% | 80.7 / 87.0 | 89 | intergenic (+24/‑40) | LY180_20335/LY180_20340 | hypothetical protein/hypothetical protein |
| * | CP006584 | 4,253,976 | 0 | T | A | 34.4% | 106.9 / 98.1 | 96 | F12Y (TTC→TAC) | LY180_20340 | hypothetical protein |
| * | CP006584 | 4,253,818 | 0 | T | C | 34.4% | 68.9 / 57.9 | 64 | S147S (AGT→AGC) | LY180_20335 | hypothetical protein |
| * | CP006584 | 4,254,025 | 0 | G | A | 29.0% | 135.0 / 60.0 | 94 | A28A (GCG→GCA) | LY180_20340 | hypothetical protein |
| * | CP006584 | 3,513,918 | 0 | G | . | 26.8% | 101.3 / 39.2 | 42 | intergenic (‑94/+245) | tldD/LY180_16725 | protease TldD/membrane protein |
| * | CP006584 | 1,643,618 | 0 | C | G | 26.1% | 145.9 / 73.9 | 90 | intergenic (‑278/‑25) | LY180_07760/LY180_07765 | sulfatase/transposase |
| * | CP006584 | 269,637 | 0 | C | T | 25.0% | 60.6 / 24.9 | 48 | R121R (CGC→CGT) | LY180_01185 | hypothetical protein |
| * | CP006584 | 1,643,642 | 0 | A | G | 24.4% | 140.6 / 56.1 | 90 | intergenic (‑302/‑1) | LY180_07760/LY180_07765 | sulfatase/transposase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP006584 | = 4739815 | 45 (1.090) | 4 (0.100) | 4/568 | 4.7 | 8.1% | intergenic (+56/‑424) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A |
| ? | CP006584 | = 4740111 | 47 (1.170) | intergenic (+352/‑128) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A | |||||
| * | ? | CP006584 | 4739807 = | 47 (1.130) | 3 (0.070) | 3/568 | 5.2 | 6.1% | intergenic (+48/‑432) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A |
| ? | CP006584 | 4740121 = | 47 (1.170) | intergenic (+362/‑118) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A | |||||
| * | ? | CP006584 | = 1636909 | 35 (0.840) | 3 (0.070) | 3/580 | 5.2 | 8.0% | coding (235/2796 nt) | LY180_07740 | zinc protease |
| ? | CP006584 | = 3471690 | 34 (0.830) | coding (32/576 nt) | LY180_16520 | sugar ABC transporter substrate‑binding protein | |||||
| * | ? | CP006584 | = 2568641 | 44 (1.060) | 3 (0.070) | 3/586 | 5.3 | 7.3% | coding (521/1164 nt) | LY180_12200 | multidrug transporter |
| ? | CP006584 | 2777616 = | 32 (0.770) | intergenic (‑10/+2) | recO/LY180_13165 | DNA repair protein RecO/GTPase Era | |||||
| * | ? | CP006584 | = 2254135 | 35 (0.840) | 3 (0.070) | 3/586 | 5.3 | 4.3% | coding (352/414 nt) | LY180_10760 | hypothetical protein |
| ? | CP006584 | = 3860746 | 98 (2.360) | coding (782/987 nt) | LY180_18405 | C4‑dicarboxylate ABC transporter substrate‑binding protein | |||||
| * | ? | CP006584 | = 549722 | 37 (0.890) | 4 (0.100) | 3/582 | 5.3 | 8.3% | intergenic (+868/+888) | LY180_02620/LY180_02630 | hypothetical protein/membrane protein |
| ? | CP006584 | = 4370923 | 52 (1.260) | coding (1489/4224 nt) | LY180_20915 | DNA‑directed RNA polymerase subunit beta' | |||||