mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.5 revision 9f368df52761
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 27 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | AE015451 | 2,550,125 | 0 | G | A | 68.2% | 58.5 / 121.9 | 135 | noncoding (1436/1522 nt) | PP_16SF | 16S ribosomal RNA |
| * | AE015451 | 196,495 | 0 | G | C | 50.5% | 122.6 / inf | 199 | T667T (ACG→ACC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 699,722 | 0 | A | G | 49.2% | 70.2 / 315.1 | 197 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | AE015451 | 196,459 | 0 | C | A | 46.0% | 150.5 / 237.2 | 162 | T655T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 4,348,705 | 0 | A | G | 44.6% | 90.7 / 242.8 | 178 | intergenic (‑70/+404) | PP_3820/galU | Group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | AE015451 | 196,438 | 0 | T | C | 39.9% | 138.5 / 158.5 | 145 | S648S (AGT→AGC) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 1,124,554 | 1 | . | T | 39.5% | 19.4 / 73.3 | 43 | coding (589/1122 nt) | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,124,579 | 0 | G | A | 39.5% | 34.0 / 31.5 | 44 | R188R (CGC→CGT) | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,327,121 | 0 | C | T | 38.6% | 155.6 / 195.4 | 176 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | AE015451 | 195,559 | 0 | C | A | 38.3% | 249.8 / 190.6 | 168 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 1,124,577 | 0 | G | A | 37.2% | 40.4 / 27.9 | 44 | S189L (TCG→TTG) ‡ | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,124,574 | 0 | C | A | 36.4% | 62.6 / 20.3 | 44 | G190V (GGC→GTC) ‡ | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,124,567 | 0 | G | . | 35.9% | 81.0 / 48.0 | 43 | coding (576/1122 nt) | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 196,579 | 0 | G | A | 34.9% | 213.3 / 195.5 | 209 | V695V (GTG→GTA) | PP_0168 | putative surface adhesion protein |
| * | AE015451 | 1,124,573 | 0 | G | A | 34.9% | 39.0 / 28.6 | 44 | G190G (GGC→GGT) ‡ | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,124,564 | 0 | G | T | 33.3% | 70.5 / 12.1 | 44 | G193G (GGC→GGA) ‡ | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,124,568 | 0 | G | T | 32.6% | 69.4 / 17.8 | 43 | T192N (ACC→AAC) | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,124,575 | 0 | C | A | 31.8% | 66.8 / 13.5 | 44 | G190C (GGC→TGC) ‡ | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,124,576 | 0 | C | A | 31.8% | 67.3 / 12.1 | 44 | S189S (TCG→TCT) ‡ | gcvT‑I | aminomethyltransferase |
| * | AE015451 | 1,124,565 | 0 | C | G | 30.9% | 63.3 / 25.5 | 43 | G193A (GGC→GCC) ‡ | gcvT‑I | aminomethyltransferase |
| Marginal new junction evidence (lowest skew 10 of 38 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AE015451 | 4808174 = | 0 (0.000) | 24 (0.260) | 14/530 | 4.4 | 50.5% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | AE015451 | = 5988935 | 47 (0.500) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | AE015451 | 5545080 = | 106 (1.000) | 349 (3.330) | 13/594 | 5.2 | 76.9% | intergenic (‑220/+657) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB |
| ? | AE015451 | = 5545666 | NA (NA) | intergenic (‑806/+71) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine‑2'‑O‑)‑methyltransferase RlmB | |||||
| * | ? | AE015451 | = 5696567 | 25 (0.240) | 12 (0.120) | 12/584 | 5.4 | 41.1% | intergenic (+19/‑193) | pyrC'/hslV | dihydroorotase‑like protein/peptidase component of the ATP‑dependent HslVU protease |
| ? | AE015451 | 5696629 = | 10 (0.100) | intergenic (+81/‑131) | pyrC'/hslV | dihydroorotase‑like protein/peptidase component of the ATP‑dependent HslVU protease | |||||
| * | ? | AE015451 | 550100 = | NA (NA) | 5 (0.050) | 5/574 | 7.7 | 4.5% | coding (775/1194 nt) | tufB | Elongation factor Tu‑B |
| ? | AE015451 | = 550096 | 112 (1.060) | coding (771/1194 nt) | tufB | Elongation factor Tu‑B | |||||
| * | ? | AE015451 | = 4769220 | 81 (0.770) | 4 (0.040) | 4/578 | 8.2 | 2.5% | coding (10047/10413 nt) | pvdD | non‑ribosomal peptide synthetase |
| ? | AE015451 | 5772390 = | 231 (2.270) | coding (573/2004 nt) | betT‑I | Choline transporter | |||||
| * | ? | AE015451 | 2457220 = | 88 (0.830) | 4 (0.040) | 4/582 | 8.2 | 2.5% | coding (291/999 nt) | PP_2150 | putative Thiamine biosynthesis lipoprotein |
| ? | AE015451 | = 5978413 | 224 (2.180) | coding (704/993 nt) | PP_5241 | DNA‑binding response regulator, LuxR family | |||||
| * | ? | AE015451 | 533510 = | NA (NA) | 4 (0.040) | 4/574 | 8.2 | 4.4% | coding (775/1194 nt) | tufA | Elongation factor Tu‑A |
| ? | AE015451 | = 533506 | 90 (0.850) | coding (771/1194 nt) | tufA | Elongation factor Tu‑A | |||||
| * | ? | AE015451 | = 4892113 | 0 (0.000) | 4 (0.040) +GCGGC |
4/590 | 8.3 | 21.9% | coding (1275/1275 nt) coding (4/1416 nt) |
ttuD pyk |
putative hydroxypyruvate reductase Pyruvate kinase |
| ? | AE015451 | 4893627 = | 29 (0.270) | intergenic (+102/‑106) | pyk/PP_4302 | Pyruvate kinase/Urea transporter | |||||
| * | ? | AE015451 | = 5880817 | 240 (2.270) | 4 (0.040) | 4/600 | 8.4 | 1.4% | coding (422/1368 nt) | PP_5154 | putative Oxidoreductase, FAD‑binding |
| ? | AE015451 | = 5908358 | 311 (2.940) | coding (863/1098 nt) | spuD | spermidine/putrescine ABC transporter ‑ periplasmic subunit | |||||
| * | ? | AE015451 | = 740858 | 119 (1.120) | 4 (0.040) | 4/600 | 8.4 | 3.1% | coding (16/411 nt) | pilA | Fimbrial protein |
| ? | AE015451 | = 779333 | 134 (1.270) | coding (2383/2433 nt) | PP_0669 | Outer membrane ferric siderophore receptor | |||||