mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 44 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | JE3692‑4 | 1,327,121 | 0 | C | T | 56.1% | 16.4 / 141.0 | 98 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | JE3692‑4 | 4,360,849 | 0 | A | G | 47.9% | 30.1 / 115.6 | 73 | intergenic (‑70/+404) | PP_3820/PP_3821 | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | JE3692‑4 | 2,337,860 | 0 | A | C | 41.5% | 84.9 / 11.5 | 53 | N258H (AAT→CAT) | PP_2049 | Alcohol dehydrogenase, iron‑containing |
| * | JE3692‑4 | 195,634 | 0 | C | T | 38.1% | 202.1 / 164.3 | 139 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 196,351 | 0 | C | G | 36.2% | 233.7 / 231.1 | 177 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 699,722 | 0 | A | G | 35.6% | 65.8 / 64.9 | 59 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | JE3692‑4 | 3,636,954 | 0 | G | C | 34.1% | 38.5 / 28.4 | 46 | G226G (GGC→GGG) | PP_3195 | conserved protein of unknown function |
| * | JE3692‑4 | 4,350,636 | 0 | T | G | 32.7% | 75.9 / 14.9 | 56 | intergenic (+112/+30) | PP_3812/PP_5632 | putative Lipase/enzyme subunit involved in allo‑isoleucine metabolism |
| * | JE3692‑4 | 2,184,203 | 0 | T | C | 32.0% | 113.9 / 44.3 | 78 | N269N (AAT→AAC) | PP_1931 | conserved protein of unknown function |
| * | JE3692‑4 | 195,559 | 0 | C | A | 31.8% | 209.0 / 115.3 | 110 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 196,390 | 0 | T | C | 31.0% | 222.8 / 112.4 | 129 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 3,527,885 | 0 | T | C | 28.3% | 103.5 / 23.9 | 60 | D86D (GAT→GAC) | PP_5576 | conserved protein of unknown function |
| * | JE3692‑4 | 681,281 | 0 | C | G | 28.1% | 66.3 / 12.1 | 34 | intergenic (+21/+48) | PP_0583/PP_0584 | Transcriptional regulator, AraC family/Methyl‑accepting chemotaxis transducer |
| * | JE3692‑4 | 5,301,739 | 0 | G | C | 27.9% | 95.0 / 17.7 | 43 | A244G (GCC→GGC) | PP_4663 | conserved transmembrane protein of unknown function |
| * | JE3692‑4 | 5,563,987 | 0 | G | T | 27.7% | 146.1 / 20.8 | 65 | intergenic (+574/+87) | PP_4882/PP_5717 | Iron ABC transporter, permease protein/conserved protein of unknown function |
| * | JE3692‑4 | 6,080,021 | 0 | G | T | 27.7% | 148.9 / 14.4 | 65 | intergenic (‑110/+37) | PP_5323/PP_5324 | Peptidase, M23/M37 family/Response regulator |
| * | JE3692‑4 | 2,337,857 | 0 | G | T | 27.3% | 113.8 / 10.5 | 55 | A257S (GCC→TCC) | PP_2049 | Alcohol dehydrogenase, iron‑containing |
| * | JE3692‑4 | 1,717,722 | 0 | G | C | 26.8% | 90.1 / 15.8 | 42 | intergenic (+81/‑177) | PP_1505/PP_1506 | Phosphoenolpyruvate carboxylase/Adenylate kinase |
| * | JE3692‑4 | 196,327 | 0 | A | C | 26.8% | 321.6 / 155.0 | 179 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | JE3692‑4 | 2,184,204 | 0 | G | C | 26.8% | 161.0 / 30.1 | 77 | V270L (GTC→CTC) | PP_1931 | conserved protein of unknown function |
| Marginal new junction evidence (lowest skew 10 of 619 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | JE3692‑4 | = 5999835 | 60 (0.790) | 12 (0.170) | 11/184 | 6.3 | 16.4% | intergenic (+53/‑493) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | JE3692‑4 | 6000027 = | 67 (0.950) | intergenic (+245/‑301) | PP_5246/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | JE3692‑4 | 173168 = | NA (NA) | 10 (0.140) | 10/184 | 6.6 | NA | intergenic (+258/‑35) | PP_16SA/PP_23SA | 16S ribosomal RNA/23S ribosomal RNA |
| ? | JE3692‑4 | 173216 = | NA (NA) | noncoding (14/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 2559423 = | NA (NA) | 15 (0.210) | 10/188 | 6.8 | 100% | noncoding (42/120 nt) | PP_5SF | 5S ribosomal RNA |
| ? | JE3692‑4 | 2559453 = | 0 (0.000) | noncoding (72/120 nt) | PP_5SF | 5S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 702925 = | NA (NA) | 15 (0.210) | 10/188 | 6.8 | 100% | noncoding (42/120 nt) | PP_5SD | 5S ribosomal RNA |
| ? | JE3692‑4 | 702955 = | 0 (0.000) | noncoding (72/120 nt) | PP_5SD | 5S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 529825 = | NA (NA) | 15 (0.210) | 10/188 | 6.8 | 88.8% | noncoding (42/120 nt) | PP_5SC | 5S ribosomal RNA |
| ? | JE3692‑4 | 529855 = | 2 (0.030) | noncoding (72/120 nt) | PP_5SC | 5S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 181708 = | NA (NA) | 15 (0.210) | 10/188 | 6.8 | 44.1% | noncoding (42/120 nt) | PP_r01 | 5S ribosomal RNA |
| ? | JE3692‑4 | 181738 = | 20 (0.260) | noncoding (72/120 nt) | PP_r01 | 5S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 176278 = | NA (NA) | 15 (0.210) | 10/188 | 6.8 | 88.8% | noncoding (42/120 nt) | PP_5SA | 5S ribosomal RNA |
| ? | JE3692‑4 | 176308 = | 2 (0.030) | noncoding (72/120 nt) | PP_5SA | 5S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 1330386 = | NA (NA) | 14 (0.190) | 9/188 | 7.2 | NA | noncoding (37/120 nt) | PP_5SE | 5S ribosomal RNA |
| ? | JE3692‑4 | 1330426 = | NA (NA) | noncoding (77/120 nt) | PP_5SE | 5S ribosomal RNA | |||||
| * | ? | JE3692‑4 | 171653 = | NA (NA) | 10 (0.130) | 9/194 | 7.4 | NA | noncoding (265/1522 nt) | PP_16SA | 16S ribosomal RNA |
| ? | JE3692‑4 | 171682 = | NA (NA) | noncoding (294/1522 nt) | PP_16SA | 16S ribosomal RNA | |||||
| * | ? | JE3692‑4 | = 2092435 | NA (NA) | 8 (0.110) | 8/184 | 7.5 | NA | noncoding (1040/1445 nt) | mobile_element | repeat region |
| ? | JE3692‑4 | = 2092462 | NA (NA) | noncoding (1067/1445 nt) | mobile_element | repeat region | |||||