mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 35 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 339,986 | 0 | G | A | 57.5% | 9.5 / 45.3 | 40 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,979 | 0 | G | A | 56.1% | 2.1 / 44.2 | 41 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 339,992 | 0 | C | . | 41.5% | 69.2 / 73.5 | 41 | coding (224/321 nt) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 2,767,442 | 0 | C | A | 41.1% | 173.2 / 12.5 | 115 | intergenic (+87/‑268) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 2,767,445 | 0 | C | A | 41.1% | 141.5 / 37.7 | 116 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 3,054,894 | 0 | G | T | 38.8% | 88.1 / 24.1 | 67 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,433,340 | 0 | G | T | 38.2% | 106.6 / 11.4 | 68 | S196Y (TCC→TAC) | accD | acetyl‑CoA carboxyltransferase subunit beta |
| * | NC_000913 | 2,767,443 | 0 | C | A | 38.0% | 166.8 / 18.2 | 116 | intergenic (+88/‑267) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 58,065 | 0 | C | A | 36.4% | 149.2 / 26.7 | 107 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 2,477,265 | 0 | A | C | 36.0% | 143.8 / 23.6 | 86 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 1,611,507 | 0 | G | T | 34.9% | 175.5 / 14.4 | 106 | L116L (CTC→CTA) | dgcF | putative diguanylate cyclase DgcF |
| * | NC_000913 | 3,911,533 | 0 | C | A | 30.7% | 323.5 / 26.9 | 192 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 4,213,310 | 0 | G | T | 30.6% | 211.4 / 11.2 | 121 | G26V (GGA→GTA) | yjaA | stress response protein |
| * | NC_000913 | 2,767,444 | 0 | C | A | 30.4% | 190.2 / 15.5 | 116 | intergenic (+89/‑266) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 4,136,467 | 0 | A | C | 29.9% | 136.3 / 20.0 | 77 | E120D (GAA→GAC) | yijE | cystine exporter |
| * | NC_000913 | 1,922,815 | 0 | C | A | 29.8% | 160.1 / 22.1 | 104 | G52V (GGA→GTA) | pphA | phosphoprotein phosphatase 1 |
| * | NC_000913 | 1,334,966 | 0 | A | C | 29.4% | 185.7 / 24.9 | 126 | intergenic (+137/‑182) | cysB/ymiA | DNA‑binding transcriptional dual regulator CysB/uncharacterized protein YmiA |
| * | NC_000913 | 2,767,449 | 0 | C | A | 29.4% | 221.6 / 19.5 | 127 | intergenic (+94/‑261) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 2,504,798 | 0 | C | T | 28.6% | 94.4 / 45.5 | 63 | K250K (AAG→AAA) | ypdE | aminopeptidase YpdE |
| * | NC_000913 | 2,053,308 | 0 | C | A | 28.4% | 269.3 / 10.5 | 134 | intergenic (+1294/‑335) | yeeJ/shiA | inverse autotransporter adhesin/shikimate:H(+) symporter |
| Marginal new junction evidence (lowest skew 10 of 15 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 156 (1.640) | 30 (0.320) | 27/580 | 2.1 | 18.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 111 (1.200) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 2739490 = | 79 (0.830) | 30 (0.320) | 21/594 | 3.0 | 27.5% | coding (580/1122 nt) | tyrA | fused chorismate mutase/prephenate dehydrogenase |
| ? | NC_000913 | = 3722075 | NA (NA) | noncoding (1443/1443 nt) | IS150 | repeat region | |||||
| * | ? | NC_000913 | 4542682 = | 149 (1.560) | 21 (0.230) | 19/580 | 3.3 | 14.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 111 (1.200) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2997717 | NA (NA) | 22 (0.230) | 19/592 | 3.4 | NA | intergenic (‑117/+317) | insC4/ygeQ | IS2 insertion element repressor InsA/putative lipoprotein YgeQ |
| ? | NC_000913 | 3720633 = | NA (NA) | noncoding (1/1443 nt) | IS150 | repeat region | |||||
| * | ? | NC_000913 | = 1469243 | NA (NA) | 19 (0.210) +21 bp |
16/556 | 3.7 | NA | intergenic (‑94/‑3) | insC2/ydbA | IS2 insertion element repressor InsA/putative outer membrane protein, N‑terminal fragment |
| ? | NC_000913 | 3720631 = | NA (NA) | intergenic (‑31/‑49) | hokA/insJ | small toxic polypeptide/insertion element IS150 protein InsA | |||||
| * | ? | NC_000913 | = 4606166 | 101 (1.060) | 10 (0.150) | 9/420 | 4.2 | 13.4% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 58 (0.870) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | 382179 = | NA (NA) | 22 (0.230) | 15/594 | 4.2 | NA | noncoding (920/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1121459 = | 57 (0.600) | 14 (0.150) | 14/596 | 4.4 | 19.7% | coding (29/246 nt) | dinI | DNA damage‑inducible protein I |
| ? | NC_000913 | = 3722075 | NA (NA) | noncoding (1443/1443 nt) | IS150 | repeat region | |||||
| * | ? | NC_000913 | = 780629 | 87 (0.910) | 7 (0.100) | 7/446 | 5.2 | 10.5% | noncoding (76/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | 780919 = | 54 (0.760) | intergenic (+1/‑149) | lysW/valZ | tRNA‑Lys/tRNA‑Val | |||||
| * | ? | NC_000913 | = 4246659 | 117 (1.230) | 8 (0.080) | 8/598 | 6.1 | 6.4% | intergenic (‑240/‑125) | malE/malK | maltose ABC transporter periplasmic binding protein/maltose ABC transporter ATP binding subunit |
| ? | NC_000913 | 4498181 = | NA (NA) | noncoding (1/1331 nt) | IS2 | repeat region | |||||