mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 97 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,097,109 | 0 | A | T | 58.8% | ‑2.9 / 13.1 | 17 | intergenic (+280/+456) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 2,177,245 | 0 | G | T | 57.8% | 6.0 / 14.6 | 47 | intergenic (‑41/+267) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,470,472 | 0 | G | T | 53.8% | ‑6.4 / 15.8 | 27 | intergenic (+10/+605) | yfdI/yfdK | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase/CPS‑53 (KpLE1) prophage; putative tail fiber assembly protein YfdK |
| * | NC_000913 | 707,976 | 0 | T | G | 53.6% | 3.9 / 28.5 | 28 | intergenic (+219/‑358) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 2,177,228 | 0 | C | G | 52.9% | 0.7 / 33.2 | 45 | intergenic (‑24/+284) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,470,427 | 0 | C | A | 52.6% | 31.3 / 52.4 | 39 | Q433K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 4,378,973 | 0 | G | C | 52.6% | ‑2.5 / 13.6 | 19 | intergenic (‑29/+34) | ampC/frdD | beta‑lactamase/fumarate reductase membrane protein FrdD |
| * | NC_000913 | 707,981 | 0 | C | G | 52.4% | 12.7 / 29.6 | 28 | intergenic (+224/‑353) | glnS/chiP | glutamine‑‑tRNA ligase/chitobiose outer membrane channel |
| * | NC_000913 | 454,919 | 0 | G | T | 51.7% | 23.0 / 36.9 | 29 | intergenic (+130/‑214) | bolA/tig | DNA‑binding transcriptional dual regulator BolA/trigger factor |
| * | NC_000913 | 2,177,255 | 0 | G | T | 50.0% | ‑3.9 / 29.3 | 52 | intergenic (‑51/+257) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 2,470,436 | 0 | C | A | 50.0% | 21.2 / 10.4 | 32 | Q436K (CAA→AAA) | yfdI | CPS‑53 (KpLE1) prophage; serotype specific glucosyl transferase |
| * | NC_000913 | 4,007,834 | 0 | C | G | 45.7% | 43.6 / 13.4 | 38 | V26V (GTC→GTG) | rhtC | L‑threonine exporter |
| * | NC_000913 | 3,407,970 | 0 | C | G | 44.4% | 25.9 / 11.2 | 27 | L122V (CTT→GTT) | panF | pantothenate:Na(+) symporter |
| * | NC_000913 | 2,177,221 | 0 | T | G | 42.2% | 13.9 / 25.3 | 45 | intergenic (‑17/+291) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| * | NC_000913 | 1,879,846 | 0 | T | G | 41.9% | 35.5 / 15.2 | 43 | T35P (ACG→CCG) | yeaR | DUF1971 domain‑containing protein YeaR |
| * | NC_000913 | 3,004,946 | 0 | G | T | 41.7% | 108.7 / 57.7 | 120 | Q281K (CAA→AAA) | ygeV | putative sigma(54)‑dependent transcriptional regulator YgeV |
| * | NC_000913 | 3,455,677 | 0 | A | T | 41.7% | 29.8 / 14.5 | 36 | N34Y (AAT→TAT) | gspC | Type II secretion system protein GspC |
| * | NC_000913 | 4,604,350 | 0 | C | A | 40.0% | 72.6 / 14.4 | 66 | S64Y (TCT→TAT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 2,171,831 | 0 | T | G | 39.5% | 23.6 / 11.1 | 38 | intergenic (‑104/+2) | gatR/gatD | DNA‑binding transcriptional repressor GatR, N‑terminal fragment/galactitol‑1‑phosphate 5‑dehydrogenase |
| * | NC_000913 | 2,177,261 | 0 | A | T | 39.3% | 70.2 / 27.3 | 56 | intergenic (‑57/+251) | gatY/fbaB | tagatose‑1,6‑bisphosphate aldolase 2 subunit GatY/fructose‑bisphosphate aldolase class I |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 49 (0.680) | 11 (0.170) | 9/226 | 3.8 | 21.4% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 38 (0.600) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1207790 = | 55 (0.760) | 7 (0.110) | 6/226 | 4.9 | 13.6% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 41 (0.650) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 709524 | 89 (1.230) | 4 (0.060) +AG |
4/254 | 6.3 | 4.8% | coding (1191/1407 nt) | chiP | chitobiose outer membrane channel |
| ? | NC_000913 | = 765134 | 73 (1.010) | intergenic (+85/+19) | sucD/mngR | succinyl‑CoA synthetase subunit alpha/DNA‑binding transcriptional repressor MngR | |||||
| * | ? | NC_000913 | 1467910 = | NA (NA) | 4 (0.060) | 4/258 | 6.4 | NA | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 1469242 | NA (NA) | intergenic (‑93/‑4) | insC‑2/ydbA | IS2 insertion element repressor InsA/putative outer membrane protein, N‑terminal fragment | |||||
| * | ? | NC_000913 | 3712553 = | 124 (1.720) | 3 (0.040) | 3/252 | 6.8 | 2.4% | coding (382/699 nt) | yhjY | conserved protein YhjY |
| ? | NC_000913 | 3712599 = | 123 (1.750) | coding (336/699 nt) | yhjY | conserved protein YhjY | |||||
| * | ? | NC_000913 | = 2070275 | NA (NA) | 8 (0.110) | 3/252 | 6.8 | NA | intergenic (‑95/‑2) | insC‑3/yoeA | CP4‑44 prophage; IS2 insertion element repressor InsA/CP4‑44 prophage; TonB‑dependent receptor plug domain‑containing protein YoeA |
| ? | NC_000913 | 2996364 = | NA (NA) | noncoding (1328/1331 nt) | IS2 | repeat region | |||||