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 26 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 | 69.1% | 253.7 / 149.4 | 182 | intergenic (‑242/‑61) | LY180_07760/LY180_07765 | sulfatase/transposase |
| * | CP006584 | 1,563,237 | 0 | T | C | 65.3% | 28.8 / 71.6 | 76 | V173A (GTT→GCT) | LY180_07445 | transposase IS609 |
| * | CP006584 | 269,400 | 0 | G | A | 50.0% | 34.2 / 192.8 | 133 | E42E (GAG→GAA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,403 | 0 | T | C | 48.9% | 31.3 / 192.5 | 135 | G43G (GGT→GGC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,452 | 0 | C | T | 48.6% | 46.2 / 196.3 | 144 | Q60* (CAA→TAA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,116 | 0 | C | T | 48.0% | 8.7 / 176.9 | 129 | R121R (CGC→CGT) | LY180_01180 | hypothetical protein |
| * | CP006584 | 269,438 | 0 | T | C | 47.9% | 30.8 / 202.1 | 143 | L55P (CTC→CCC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,443 | 0 | T | G | 47.9% | 21.8 / 228.1 | 142 | F57V (TTT→GTT) | LY180_01185 | hypothetical protein |
| * | CP006584 | 269,453 | 0 | A | G | 47.2% | 40.8 / 200.1 | 144 | Q60R (CAA→CGA) | LY180_01185 | hypothetical protein |
| * | CP006584 | 3,513,965 | 0 | T | C | 44.0% | 13.4 / 110.4 | 87 | intergenic (‑141/+198) | tldD/LY180_16725 | protease TldD/membrane protein |
| * | CP006584 | 269,492 | 0 | C | T | 42.7% | 85.0 / 168.6 | 143 | T73I (ACC→ATC) | LY180_01185 | hypothetical protein |
| * | CP006584 | 2,802,468 | 0 | T | G | 41.2% | ‑6.0 / 10.2 | 17 | noncoding (1687/2931 nt) | LY180_13285 | 23S ribosomal RNA |
| * | CP006584 | 1,563,136 | 0 | T | C | 37.5% | 31.4 / 36.1 | 40 | N139N (AAT→AAC) | LY180_07445 | transposase IS609 |
| * | CP006584 | 4,253,976 | 0 | T | A | 37.3% | 183.9 / 197.9 | 170 | F12Y (TTC→TAC) | LY180_20340 | hypothetical protein |
| * | CP006584 | 1,310,833 | 0 | A | G | 36.4% | 75.2 / 71.7 | 77 | intergenic (‑289/+140) | LY180_06180/LY180_06185 | hypothetical protein/hypothetical protein |
| * | CP006584 | 3,513,918 | 0 | G | . | 36.3% | 231.3 / 146.8 | 103 | intergenic (‑94/+245) | tldD/LY180_16725 | protease TldD/membrane protein |
| * | CP006584 | 1,310,832 | 0 | T | G | 35.5% | 71.6 / 92.5 | 76 | intergenic (‑288/+141) | LY180_06180/LY180_06185 | hypothetical protein/hypothetical protein |
| * | CP006584 | 269,041 | 0 | T | C | 35.3% | 106.8 / 110.7 | 119 | D96D (GAT→GAC) | LY180_01180 | hypothetical protein |
| * | CP006584 | 269,044 | 0 | T | C | 35.3% | 109.1 / 112.2 | 119 | C97C (TGT→TGC) | LY180_01180 | hypothetical protein |
| * | CP006584 | 4,254,025 | 0 | G | A | 32.5% | 209.9 / 137.2 | 164 | A28A (GCG→GCA) | LY180_20340 | hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 14 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP006584 | = 2253835 | 26 (0.300) | 30 (0.370) | 27/556 | 3.1 | 48.5% | coding (52/414 nt) | LY180_10760 | hypothetical protein |
| ? | CP006584 | = 2255646 | 39 (0.470) | coding (842/1284 nt) | LY180_10775 | tail protein | |||||
| * | ? | CP006584 | = 294513 | 57 (0.660) | 20 (0.260) | 20/518 | 4.0 | 23.8% | coding (59/996 nt) | LY180_01335 | hypothetical protein |
| ? | CP006584 | = 297529 | 78 (1.020) | coding (531/1515 nt) | LY180_01350 | tail protein | |||||
| * | ? | CP006584 | = 3279481 | 78 (0.900) | 4 (0.050) | 4/584 | 10.3 | 3.9% | coding (400/828 nt) | dkgA | 2,5‑diketo‑D‑gluconic acid reductase |
| ? | CP006584 | = 3949616 | 120 (1.390) | coding (29/1392 nt) | LY180_18820 | xanthine permease | |||||
| * | ? | CP006584 | 4735421 = | 110 (1.270) | 3 (0.040) | 3/570 | 10.8 | 2.8% | coding (471/1107 nt) | LY180_22610 | N‑acetylneuraminic acid mutarotase |
| ? | CP006584 | 4735445 = | 102 (1.210) | coding (447/1107 nt) | LY180_22610 | N‑acetylneuraminic acid mutarotase | |||||
| * | ? | CP006584 | = 4435610 | 95 (1.100) | 4 (0.050) | 3/582 | 10.9 | 4.1% | coding (572/1191 nt) | malE | sugar ABC transporter substrate‑binding protein |
| ? | CP006584 | 4496647 = | NA (NA) | coding (437/1209 nt) | LY180_21450 | hypothetical protein | |||||
| * | ? | CP006584 | 894142 = | 74 (0.850) | 3 (0.040) | 3/580 | 10.9 | 3.3% | coding (1600/2259 nt) | dinG | ATP‑dependent DNA helicase DinG |
| ? | CP006584 | 4739205 = | 104 (1.210) | coding (43/597 nt) | LY180_22625 | tyrosine recombinase | |||||
| * | ? | CP006584 | = 3233094 | 98 (1.130) | 3 (0.030) | 3/584 | 11.0 | 3.0% | coding (1148/4431 nt) | LY180_15365 | Accessory colonization factor AcfD |
| ? | CP006584 | = 3312777 | 98 (1.140) | coding (1023/1662 nt) | LY180_15750 | membrane protein | |||||
| * | ? | CP006584 | = 1848036 | 67 (0.770) | 3 (0.030) | 3/584 | 11.0 | 3.8% | intergenic (‑243/+305) | sufA/LY180_08780 | iron‑sulfur cluster assembly scaffold protein/hypothetical protein |
| ? | CP006584 | = 4774221 | 85 (0.990) | coding (1124/2151 nt) | LY180_22790 | carbon starvation protein CstA | |||||
| * | ? | CP006584 | 1028624 = | 71 (0.820) | 3 (0.030) | 3/586 | 11.0 | 3.2% | coding (943/1749 nt) | LY180_04800 | ATP‑binding protein |
| ? | CP006584 | 3311211 = | 111 (1.280) | coding (113/630 nt) | LY180_15745 | membrane protein | |||||
| * | ? | CP006584 | = 935228 | 103 (1.190) | 3 (0.030) | 3/584 | 11.0 | 2.8% | coding (1617/2427 nt) | LY180_04390 | cyclic di‑GMP phosphodiesterase |
| ? | CP006584 | = 3566186 | 109 (1.260) | coding (69/435 nt) | LY180_17005 | 50S ribosomal protein L15 | |||||