mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 579,846 | C→A | 11.3% | intergenic (‑252/‑34) | ybcV ← / → ybcW | DLP12 prophage; uncharacterized protein/DLP12 prophage; uncharacterized protein |
| RA | 1,413,542 | A→T | 100% | Y67N (TAT→AAT) | ydaC ← | DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein |
| RA | 1,793,897 | Δ1 bp | 100% | coding (213/552 nt) | btuE ← | glutathione peroxidase |
| RA | 1,800,575 | G→A | 17.3% | Q22* (CAG→TAG) | infC ← | translation initiation factor IF‑3 |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 2,093,040 | G→A | 100% | A215T (GCT→ACT) | hisC → | histidinol‑phosphate aminotransferase |
| RA | 2,516,091 | C→T | 14.3% | M580I (ATG→ATA) | yfeA ← | putative diguanylate cyclase |
| RA | 2,605,627 | C→T | 8.6% | G273G (GGC→GGT) | hyfD → | hydrogenase 4, membrane subunit |
| RA | 2,636,042 | A→G | 12.0% | L438S (TTG→TCG) | der ← | GTPase; multicopy suppressor of ftsJ |
| RA | 3,102,557 | C→A | 17.5% | P98P (CCG→CCT) | trmI ← | tRNA m(7)G46 methyltransferase, SAM‑dependent |
| RA | 3,366,973 | C→T | 8.0% | S17L (TCA→TTA) | yhcF → | putative transcriptional regulator |
| RA | 3,372,125 | T→A | 11.9% | I150F (ATT→TTT) | nanT ← | sialic acid transporter |
| RA | 3,744,794 | A→G | 9.6% | G156G (GGA→GGG) | yiaM → | 2,3‑diketo‑L‑gulonate TRAP transporter small permease protein |
| RA | 3,952,942 | A→G | 57.1% | T154A (ACC→GCC) | ilvE → | branched‑chain amino acid aminotransferase |
| RA | 4,117,038 | C→A | 100% | V62L (GTA→TTA) | glpK ← | glycerol kinase |
| RA | 4,313,472 | C→T | 5.7% | T41I (ACT→ATT) | rpiB → | ribose 5‑phosphate isomerase B/allose 6‑phosphate isomerase |
| RA | 4,313,777 | G→A | 5.5% | A143T (GCA→ACA) | rpiB → | ribose 5‑phosphate isomerase B/allose 6‑phosphate isomerase |
| RA | 4,357,064 | C→A | 5.3% | D519Y (GAC→TAC) | cadA ← | lysine decarboxylase, acid‑inducible |
| RA | 4,450,018 | C→T | 6.9% | A19V (GCG→GTG) | ytfQ → | galactofuranose ABC transporter periplasmic binding protein |
| RA | 4,454,128 | G→A | 6.6% | R182H (CGT→CAT) | yjfF → | putative sugar ABC transporter permease |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 366111 | 366455 | 345 | 8 [7] | [7] 8 | [lacZ]–[lacI] | [lacZ],[lacI] |
| * | * | ÷ | NC_000913 | 3423793–3424232 | 3424513–3424236 | 5–721 | 8 [6] | [6] 9 | [rrlD] | [rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 5 (0.120) | 14 (0.370) | 14/244 | NT | 67.6% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 9 (0.240) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 5 (0.120) | 11 (0.290) | 11/244 | NT | 62.1% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 9 (0.240) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 18 (0.440) | 17/268 | NT | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 3639287 | NA (NA) | 3 (0.070) | 3/262 | NT | NA | noncoding (80/98 nt) | RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | = 3639298 | NA (NA) | noncoding (91/98 nt) | RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP261 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||