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 |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_hsa_tpiA | 59,089 | 0 | A | C | 57.9% | 2.2 / 19.9 | 19 | pseudogene (38/228 nt) | yabP | pseudogene, pentapeptide repeats‑containing |
| * | NC_000913_3_hsa_tpiA | 4,296,042 | 0 | C | T | 33.9% | 62.3 / 43.6 | 57 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913_3_hsa_tpiA | 59,107 | 0 | T | C | 32.4% | 36.8 / 24.0 | 34 | pseudogene (56/228 nt) | yabP | pseudogene, pentapeptide repeats‑containing |
| Marginal new junction evidence (lowest skew 10 of 22 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_hsa_tpiA | = 1207805 | 32 (0.810) | 8 (0.230) | 8/248 | 3.2 | 21.2% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_hsa_tpiA | = 1209602 | 31 (0.880) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3946053 | 5 (0.130) | 6 (0.160) | 6/272 | 4.2 | 55.3% | noncoding (2350/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913_3_hsa_tpiA | = 3946069 | NA (NA) | noncoding (2366/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2808182 = | 48 (1.210) | 6 (0.160) | 6/272 | 4.2 | 11.7% | noncoding (52/84 nt) | REP193 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP193 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 2808208 = | 44 (1.140) | noncoding (78/84 nt) | REP193 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP193 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 228108 | NA (NA) | 6 (0.160) | 6/272 | 4.2 | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_hsa_tpiA | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 4245115 = | NA (NA) | 5 (0.130) | 5/266 | 4.6 | 7.9% | noncoding (42/126 nt) | REP315 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP315 (repetitive extragenic palindromic) element; contains 3 REP sequences |
| ? | NC_000913_3_hsa_tpiA | 4245147 = | 58 (1.540) | noncoding (74/126 nt) | REP315 (repetitive extragenic palindromic) element; contains 3 REP sequences | REP315 (repetitive extragenic palindromic) element; contains 3 REP sequences | |||||
| * | ? | NC_000913_3_hsa_tpiA | 2728214 = | NA (NA) | 5 (0.130) | 5/272 | 4.6 | NA | noncoding (971/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913_3_hsa_tpiA | 2728240 = | NA (NA) | noncoding (945/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 226729 | 9 (0.230) | 5 (0.130) | 5/272 | 4.6 | 36.4% | noncoding (971/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_hsa_tpiA | 2728240 = | NA (NA) | noncoding (945/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913_3_hsa_tpiA | 3600976 = | 43 (1.080) | 4 (0.110) | 4/256 | 4.9 | 8.4% | intergenic (‑193/+52) | rpoH/ftsX | RNA polymerase, sigma 32 (sigma H) factor/putative ABC transporter permease |
| ? | NC_000913_3_hsa_tpiA | 3601013 = | 48 (1.320) | intergenic (‑230/+15) | rpoH/ftsX | RNA polymerase, sigma 32 (sigma H) factor/putative ABC transporter permease | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 4593411 | 46 (1.160) | 4 (0.110) | 4/266 | 5.0 | 8.8% | coding (1294/1362 nt) | lgoT | putative L‑galactonate:H+ symporter |
| ? | NC_000913_3_hsa_tpiA | = 4593417 | 39 (1.040) | coding (1288/1362 nt) | lgoT | putative L‑galactonate:H+ symporter | |||||
| * | ? | NC_000913_3_hsa_tpiA | = 3167879 | 21 (0.530) | 4 (0.110) | 4/262 | 5.0 | 17.9% | coding (368/396 nt) | mqsA | antitoxin for MqsR toxin; transcriptional repressor |
| ? | NC_000913_3_hsa_tpiA | = 3167883 | 17 (0.460) | coding (364/396 nt) | mqsA | antitoxin for MqsR toxin; transcriptional repressor | |||||