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_bme_pgi | 526,800 | 0 | A | G | 35.9% | 76.7 / 87.5 | 93 | E1180E (GAA→GAG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 526,796 | 0 | C | G | 35.3% | 97.9 / 91.4 | 102 | A1179G (GCG→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 526,792 | 0 | A | C | 35.2% | 102.5 / 82.7 | 105 | S1178R (AGC→CGC) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913_3_bme_pgi | 4,296,061 | 0 | C | T | 31.6% | 80.4 / 59.5 | 80 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Marginal new junction evidence (lowest skew 10 of 128 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_bme_pgi | = 381669 | NA (NA) | 13 (0.150) | 10/282 | 7.6 | NA | coding (319/366 nt) | insC1 | IS2 repressor TnpA |
| ? | NC_000913_3_bme_pgi | = 381695 | NA (NA) | coding (345/366 nt) coding (22/906 nt) |
insC1 insD1 |
IS2 repressor TnpA IS2 transposase TnpB |
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| * | ? | NC_000913_3_bme_pgi | = 584641 | 133 (1.480) | 10 (0.120) | 9/282 | 8.1 | 7.3% | intergenic (+211/+39) | appY/ompT | global transcriptional activator; DLP12 prophage/DLP12 prophage; outer membrane protease VII; outer membrane protein 3b |
| ? | NC_000913_3_bme_pgi | = 584656 | 129 (1.510) | intergenic (+226/+24) | appY/ompT | global transcriptional activator; DLP12 prophage/DLP12 prophage; outer membrane protease VII; outer membrane protein 3b | |||||
| * | ? | NC_000913_3_bme_pgi | = 315646 | NA (NA) | 12 (0.140) | 9/286 | 8.1 | NA | coding (60/867 nt) | insF1 | IS3 transposase B |
| ? | NC_000913_3_bme_pgi | = 315665 | NA (NA) | coding (79/867 nt) | insF1 | IS3 transposase B | |||||
| * | ? | NC_000913_3_bme_pgi | = 2099817 | 136 (1.510) | 9 (0.100) | 8/284 | 8.5 | 6.6% | intergenic (‑204/+45) | ugd/gnd | UDP‑glucose 6‑dehydrogenase/6‑phosphogluconate dehydrogenase, decarboxylating |
| ? | NC_000913_3_bme_pgi | = 2099828 | 123 (1.430) | intergenic (‑215/+34) | ugd/gnd | UDP‑glucose 6‑dehydrogenase/6‑phosphogluconate dehydrogenase, decarboxylating | |||||
| * | ? | NC_000913_3_bme_pgi | 644022 = | 112 (1.250) | 7 (0.080) | 7/280 | 8.9 | 6.2% | intergenic (‑55/+175) | rnk/rna | regulator of nucleoside diphosphate kinase/ribonuclease I |
| ? | NC_000913_3_bme_pgi | 644051 = | 107 (1.260) | intergenic (‑84/+146) | rnk/rna | regulator of nucleoside diphosphate kinase/ribonuclease I | |||||
| * | ? | NC_000913_3_bme_pgi | = 3255287 | NA (NA) | 10 (0.120) | 7/284 | 9.0 | NA | noncoding (71/103 nt) | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913_3_bme_pgi | = 3255319 | NA (NA) | noncoding (103/103 nt) | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913_3_bme_pgi | = 2199899 | 81 (0.900) | 7 (0.080) | 7/284 | 9.0 | 8.9% | pseudogene (578/948 nt) | yehH | DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function |
| ? | NC_000913_3_bme_pgi | = 2199997 | 66 (0.770) | pseudogene (676/948 nt) | yehH | DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function | |||||
| * | ? | NC_000913_3_bme_pgi | 225154 = | NA (NA) | 12 (0.140) | 7/286 | 9.1 | NA | noncoding (1384/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913_3_bme_pgi | 225176 = | NA (NA) | noncoding (1406/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913_3_bme_pgi | = 1486996 | 135 (1.500) | 6 (0.070) | 6/274 | 9.3 | 4.5% | intergenic (+33/‑239) | hrpA/ydcF | putative ATP‑dependent helicase/DUF218 superfamily protein, SAM‑binding |
| ? | NC_000913_3_bme_pgi | = 1487009 | 128 (1.540) | intergenic (+46/‑226) | hrpA/ydcF | putative ATP‑dependent helicase/DUF218 superfamily protein, SAM‑binding | |||||
| * | ? | NC_000913_3_bme_pgi | 3535566 = | 101 (1.120) | 9 (0.100) | 6/284 | 9.5 | 8.6% | coding (303/1353 nt) | envZ | sensory histidine kinase in two‑component regulatory system with OmpR |
| ? | NC_000913_3_bme_pgi | 3535601 = | 94 (1.090) | coding (268/1353 nt) | envZ | sensory histidine kinase in two‑component regulatory system with OmpR | |||||