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 | 64.6% | 128.5 / 122.4 | 130 | intergenic (‑242/‑61) | LY180_07760/LY180_07765 | sulfatase/transposase |
| * | CP006584 | 269,116 | 0 | C | T | 50.7% | 7.7 / 191.5 | 144 | R121R (CGC→CGT) | LY180_01180 | hypothetical protein |
| * | CP006584 | 1,563,237 | 0 | T | C | 49.0% | 13.3 / 68.5 | 53 | V173A (GTT→GCT) | LY180_07445 | transposase IS609 |
| * | CP006584 | 269,492 | 0 | C | T | 46.0% | 40.0 / 163.9 | 126 | T73I (ACC→ATC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,453 | 0 | A | G | 44.9% | 43.8 / 180.5 | 137 | Q60R (CAA→CGA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,438 | 0 | T | C | 44.5% | 40.5 / 175.3 | 138 | L55P (CTC→CCC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,443 | 0 | T | G | 44.5% | 21.7 / 209.4 | 137 | F57V (TTT→GTT) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,452 | 0 | C | T | 44.4% | 53.3 / 168.5 | 137 | Q60* (CAA→TAA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,400 | 0 | G | A | 43.4% | 60.2 / 149.3 | 122 | E42E (GAG→GAA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,044 | 0 | T | C | 42.2% | 38.0 / 134.9 | 117 | C97C (TGT→TGC) | LY180_01180 | hypothetical protein |
| * | CP006584 | 269,041 | 0 | T | C | 42.1% | 34.0 / 133.1 | 116 | D96D (GAT→GAC) | LY180_01180 | hypothetical protein |
| * | CP006584 | 269,403 | 0 | T | C | 41.1% | 68.4 / 146.5 | 125 | G43G (GGT→GGC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 4,399,468 | 0 | A | C | 32.9% | 70.0 / 76.4 | 73 | intergenic (+465/‑57) | LY180_21030/LY180_21035 | alcohol dehydrogenase/hypothetical protein |
| * | CP006584 | 1,643,618 | 0 | C | G | 31.1% | 205.1 / 124.7 | 140 | intergenic (‑278/‑25) | LY180_07760/LY180_07765 | sulfatase/transposase |
| * | CP006584 | 1,563,136 | 0 | T | C | 30.8% | 26.3 / 17.6 | 26 | N139N (AAT→AAC) | LY180_07445 | transposase IS609 |
| * | CP006584 | 268,981 | 0 | C | A | 30.1% | 129.2 / 54.7 | 85 | S76R (AGC→AGA) | LY180_01180 | hypothetical protein |
| * | CP006584 | 1,372,567 | 0 | G | A | 27.3% | 92.0 / 27.8 | 57 | W19* (TGG→TAG) | LY180_06475 | hypothetical protein |
| * | CP006584 | 269,637 | 0 | C | T | 25.7% | 104.3 / 37.4 | 74 | R121R (CGC→CGT) | LY180_01185 | hypothetical protein |
| * | CP006584 | 268,971 | 0 | C | T | 25.6% | 133.1 / 44.1 | 87 | T73I (ACC→ATC) | LY180_01180 | hypothetical protein |
| * | CP006584 | 4,014,581 | 0 | T | C | 25.5% | 81.2 / 16.7 | 51 | A28A (GCT→GCC) | LY180_19145 | hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 18 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP006584 | 2253821 = | 34 (0.550) | 13 (0.220) | 13/556 | 3.2 | 26.2% | coding (38/414 nt) | LY180_10760 | hypothetical protein |
| ? | CP006584 | 2255662 = | 41 (0.710) | coding (826/1284 nt) | LY180_10775 | tail protein | |||||
| * | ? | CP006584 | = 4739815 | 60 (0.980) | 13 (0.220) | 12/568 | 3.5 | 16.8% | intergenic (+56/‑424) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A |
| ? | CP006584 | = 4740111 | 71 (1.200) | intergenic (+352/‑128) | LY180_22625/fimA | tyrosine recombinase/type‑1 fimbrial protein subunit A | |||||
| * | ? | CP006584 | 794676 = | NA (NA) | 7 (0.120) | 7/576 | 4.8 | NA | coding (1871/4200 nt) | LY180_03720 | rhsA |
| ? | CP006584 | = 794771 | NA (NA) | coding (1966/4200 nt) | LY180_03720 | rhsA | |||||
| * | ? | CP006584 | = 3884875 | 109 (1.780) | 7 (0.110) | 7/584 | 4.9 | 5.8% | coding (905/1137 nt) | LY180_18515 | membrane protein |
| ? | CP006584 | 3885089 = | 120 (1.960) | coding (691/1137 nt) | LY180_18515 | membrane protein | |||||
| * | ? | CP006584 | = 1213484 | 0 (0.000) | 6 (0.100) | 6/586 | 5.3 | 100% | intergenic (+183/‑112) | LY180_05705/LY180_05710 | DNAse/PTS glucose transporter subunit IIBC |
| ? | CP006584 | 1213492 = | 0 (0.000) | intergenic (+191/‑104) | LY180_05705/LY180_05710 | DNAse/PTS glucose transporter subunit IIBC | |||||
| * | ? | CP006584 | = 2804414 | NA (NA) | 69 (1.310) +41 bp |
4/504 | 5.5 | 95.2% | noncoding (1/76 nt) | LY180_13290 | tRNA‑Glu |
| ? | CP006584 | 3548893 = | 4 (0.070) | intergenic (‑25/+44) | LY180_16880/LY180_16885 | tRNA‑Ile/16S ribosomal RNA | |||||
| * | ? | CP006584 | = 3486211 | 77 (1.260) | 3 (0.050) | 3/582 | 6.5 | 3.4% | coding (2772/4569 nt) | gltB | glutamate synthase subunit alpha |
| ? | CP006584 | = 4153919 | 94 (1.540) | coding (99/900 nt) | LY180_19835 | membrane protein | |||||
| * | ? | CP006584 | 4128964 = | 76 (1.240) | 3 (0.050) | 3/586 | 6.6 | 3.8% | coding (508/741 nt) | hemD | uroporphyrinogen‑III synthase |
| ? | CP006584 | 4143081 = | NA (NA) | coding (1025/1209 nt) | LY180_19775 | hypothetical protein | |||||
| * | ? | CP006584 | 3590816 = | 76 (1.240) | 3 (0.050) +A |
3/584 | 6.6 | 3.7% | coding (1006/1023 nt) | LY180_17200 | hydrolase |
| ? | CP006584 | = 4105155 | 79 (1.290) | coding (271/1485 nt) | LY180_19565 | guanosine pentaphosphate phosphohydrolase | |||||
| * | ? | CP006584 | = 3551336 | 84 (1.370) | 3 (0.050) | 3/586 | 6.6 | 3.4% | coding (386/555 nt) | LY180_16895 | hypothetical protein |
| ? | CP006584 | 3670928 = | NA (NA) | intergenic (+269/‑34) | glpD/LY180_17570 | glycerol‑3‑phosphate dehydrogenase/hypothetical protein | |||||