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 |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 124,241 | C→T | 100% | Q409* (CAG→TAG) | aceE → | pyruvate dehydrogenase E1 component |
| MC JC | 257,908 | Δ776 bp | 100% | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 674,768 | G→T | 100% | R6S (CGC→AGC) | leuS ← | leucine‑‑tRNA ligase |
| RA | 696,470 | C→T | 100% | noncoding (35/75 nt) | glnX ← | tRNA‑Gln |
| RA | 754,446 | A→G | 100% | L8P (CTC→CCC) | gltA ← | citrate synthase |
| RA | 760,485 | G→A | 100% | G594S (GGC→AGC) | sucA → | subunit of E1(0) component of 2‑oxoglutarate dehydrogenase |
| RA | 798,039 | C→T | 13.9% | L131L (CTG→CTA) | ybhA ← | pyridoxal phosphate/fructose‑1,6‑bisphosphate phosphatase |
| RA | 1,196,220 | C→T | 44.5% | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | 44.9% | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| JC JC | 1,293,032 | IS1 (–) +8 bp | 100% | intergenic (‑110/‑488) | hns ← / → tdk | DNA‑binding transcriptional dual regulator H‑NS/thymidine/deoxyuridine kinase |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | insH21 | insH21 | |
| RA | 1,440,791 | C→T | 40.9% | intergenic (‑7/‑267) | ydbK ← / → ydbJ | putative pyruvate‑flavodoxin oxidoreductase/DUF333 domain‑containing protein YdbJ |
| RA | 1,445,616 | G→C | 7.8% | A856P (GCA→CCA) | ydbH → | PF11739 family protein YdbH |
| RA | 1,498,892 | A→T | 8.2% | intergenic (+17/‑46) | ydcH → / → rimL | protein YdcH/ribosomal‑protein‑L12‑serine acetyltransferase |
| RA | 1,498,894 | C→G | 8.4% | intergenic (+19/‑44) | ydcH → / → rimL | protein YdcH/ribosomal‑protein‑L12‑serine acetyltransferase |
| RA | 1,498,896 | A→T | 8.2% | intergenic (+21/‑42) | ydcH → / → rimL | protein YdcH/ribosomal‑protein‑L12‑serine acetyltransferase |
| JC JC | 1,572,474 | IS5 (+) +4 bp | 100% | coding (2726‑2729/2796 nt) | pqqL ← | putative zinc peptidase |
| RA | 1,576,033 | T→C | 9.8% | V529V (GTA→GTG) | yddB ← | putative TonB‑dependent receptor |
| RA | 1,708,718 | G→A | 25.2% | A600A (GCG→GCA) | rsxC → | SoxR [2Fe‑2S] reducing system protein RsxC |
| RA | 1,795,229 | A→T | 18.6% | intergenic (‑77/+24) | btuC ← / ← ihfA | vitamin B12 ABC transporter membrane subunit/integration host factor subunit alpha |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| JC JC | 1,979,486 | IS5 (+) +4 bp | 100% | intergenic (‑271/‑264) | insA‑5 ← / → uspC | IS1 protein InsA/universal stress protein C |
| RA | 2,132,787 | A→C | 100% | I204S (ATC→AGC) | wcaA ← | putative colanic acid biosynthesis glycosyl transferase |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (917‑918/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,263,834 | G→A | 27.7% | intergenic (‑339/‑29) | fruB ← / → setB | fructose‑specific PTS multiphosphoryl transfer protein FruB/sugar exporter SetB |
| RA | 2,368,101 | T→C | 100% | A21A (GCT→GCC) | arnA → | fused UDP‑4‑amino‑4‑deoxy‑L‑arabinose formyltransferase/UDP‑glucuronate dehydrogenase |
| RA | 2,661,821 | C→G | 100% | C104S (TGC→TCC) | iscR ← | DNA‑binding transcriptional dual regulator IscR |
| RA | 3,041,634 | A→C | 100% | T108P (ACC→CCC) | ygfZ → | folate‑binding protein |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,657,599 | T→A | 10.6% | intergenic (+32/+387) | hdeD → / ← arrS | acid‑resistance membrane protein/small regulatory RNA ArrS |
| MC JC | 3,815,859 | Δ82 bp | 100% | [rph] | [rph] | |
| MC JC | 4,001,645 | Δ5 bp | 100% | coding (220‑224/951 nt) | corA → | Ni(2(+))/Co(2(+))/Mg(2(+)) transporter |
| RA | 4,184,543 | C→A | 100% | P1100Q (CCG→CAG) | rpoB → | RNA polymerase subunit beta |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,600,614 | T→C | 12.6% | N121S (AAC→AGC) | dnaC ← | DNA replication protein DnaC |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 315852 | NA (NA) | 13 (0.480) | 7/256 | NT | NA | noncoding (624/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 315875 | NA (NA) | noncoding (647/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 316201 | NA (NA) | 5 (0.190) | 4/246 | NT | NA | noncoding (973/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 316220 | NA (NA) | noncoding (992/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 566777 = | NA (NA) | 1585 (57.370) | 244/262 | NT | 97.9% | noncoding (1/1258 nt) | IS3 | repeat region |
| ? | NC_000913 | = 572471 | 35 (1.260) | coding (6/456 nt) | ybcN | DLP12 prophage; DNA base‑flipping protein | |||||
| * | ? | NC_000913 | = 566841 | 10 (0.360) | 14 (0.680) +34 bp |
11/196 | NT | 45.7% | noncoding (65/1258 nt) | IS3 | repeat region |
| ? | NC_000913 | = 572471 | 35 (1.260) | coding (6/456 nt) | ybcN | DLP12 prophage; DNA base‑flipping protein | |||||
| * | ? | NC_000913 | 1207790 = | 0 (0.000) | 9 (0.370) | 8/232 | NT | 90.0% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 2 (0.080) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 0 (0.000) | 8 (0.330) | 8/232 | NT | 88.9% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 2 (0.080) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1497378 = | 32 (1.150) | 4 (0.150) | 3/250 | NT | 10.5% | coding (523/1656 nt) | opgD | glucan biosynthesis protein D |
| ? | NC_000913 | 1497422 = | 38 (1.440) | coding (567/1656 nt) | opgD | glucan biosynthesis protein D | |||||
| * | ? | NC_000913 | = 2493119 | 27 (0.970) | 4 (0.150) | 4/248 | NT | 13.0% | coding (136/1251 nt) | frc | formyl‑CoA transferase |
| ? | NC_000913 | = 2493124 | 28 (1.070) | coding (131/1251 nt) | frc | formyl‑CoA transferase | |||||
| * | ? | NC_000913 | 2729955 = | NA (NA) | 3 (0.110) | 3/252 | NT | NA | noncoding (1203/1542 nt) | rrsG | 16S ribosomal RNA |
| ? | NC_000913 | 2729972 = | NA (NA) | noncoding (1186/1542 nt) | rrsG | 16S ribosomal RNA | |||||
| * | ? | NC_000913 | 2942789 = | 31 (1.110) | 3 (0.110) | 3/250 | NT | 10.3% | noncoding (94/205 nt) | gcvB | small regulatory RNA GcvB |
| ? | NC_000913 | 2942808 = | 23 (0.870) | noncoding (113/205 nt) | gcvB | small regulatory RNA GcvB | |||||
| * | ? | NC_000913 | = 4171445 | 2 (0.070) | 4 (0.150) | 4/258 | NT | 67.2% | noncoding (2805/2904 nt) | rrlB | 23S ribosomal RNA |
| ? | NC_000913 | = 4212832 | NA (NA) | noncoding (2790/2904 nt) | rrlE | 23S ribosomal RNA | |||||