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 |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 986,848 | 0 | A | G | 57.9% | 124.7 / 307.3 | 261 | F45F (TTT→TTC) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 986,863 | 0 | A | G | 57.1% | 127.4 / 280.8 | 247 | V40V (GTT→GTC) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 3,946,246 | 0 | G | A | 56.0% | ‑4.1 / 310.8 | 242 | noncoding (2543/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| * | NC_000913 | 2,755,880 | 0 | G | A | 52.4% | 158.4 / inf | 863 | intergenic (+502/‑279) | smpB/intA | tmRNA‑binding trans‑translation protein/CP4‑57 prophage; integrase |
| * | NC_000913 | 2,779,245 | 0 | A | G | 47.9% | ‑2.9 / 131.0 | 94 | L1161P (CTT→CCT) | ypjA | adhesin‑like autotransporter |
| * | NC_000913 | 4,216,039 | 0 | C | A | 45.6% | 43.8 / 138.9 | 103 | L188M (CTG→ATG) | aceB | malate synthase A |
| * | NC_000913 | 986,023 | 0 | G | A | 41.1% | 117.4 / 197.0 | 180 | G320G (GGC→GGT) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 986,566 | 0 | T | C | 38.5% | 119.5 / 148.7 | 149 | E139E (GAA→GAG) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 986,560 | 0 | A | G | 38.4% | 86.4 / 147.4 | 139 | G141G (GGT→GGC) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 986,569 | 0 | T | A | 38.0% | 147.2 / 165.5 | 150 | P138P (CCA→CCT) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 986,554 | 0 | A | G | 37.7% | 124.8 / 144.0 | 147 | D143D (GAT→GAC) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 986,551 | 0 | A | C | 37.6% | 115.0 / 173.5 | 149 | T144T (ACT→ACG) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.5% | 294.1 / 147.4 | 207 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 986,413 | 0 | A | G | 27.5% | 248.3 / 110.6 | 167 | R190R (CGT→CGC) | ompF | outer membrane porin 1a (Ia;b;F) |
| * | NC_000913 | 2,179,330 | 0 | T | C | 27.2% | 113.2 / 53.2 | 81 | S170S (AGT→AGC) | yegT | nucleoside transporter, low affinity |
| * | NC_000913 | 4,013,889 | 0 | C | T | 22.4% | 256.8 / 48.4 | 125 | R279R (CGC→CGT) | metE | 5‑methyltetrahydropteroyltriglutamate‑ homocysteine S‑methyltransferase |
| * | NC_000913 | 4,177,171 | 0 | T | A | 20.4% | 202.7 / 52.8 | 93 | intergenic (+43/‑187) | tufB/secE | translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit |
| Marginal new junction evidence (lowest skew 10 of 1039 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 3944978 | NA (NA) | 56 (0.570) | 21/186 | 7.1 | 39.3% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4038811 | 92 (0.880) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 56 (0.570) | 20/186 | 7.5 | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 227052 | 122 (1.170) | 56 (0.570) | 18/186 | 8.2 | 32.8% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 228108 | NA (NA) | 26 (0.260) | 17/190 | 8.8 | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 59280 = | 119 (1.140) | 15 (0.170) | 13/164 | 9.0 | 13.2% | intergenic (+1/+407) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent |
| ? | NC_000913 | 59320 = | 99 (1.150) | intergenic (+41/+367) | yabP/rluA | pseudogene, pentapeptide repeats‑containing/dual specificity 23S rRNA pseudouridine(746), tRNA pseudouridine(32) synthase, SAM‑dependent | |||||
| * | ? | NC_000913 | 225078 = | NA (NA) | 33 (0.340) | 14/184 | 9.7 | NA | noncoding (1308/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 225100 = | NA (NA) | noncoding (1330/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 274419 | NA (NA) | 71 (0.720) | 14/188 | 9.9 | NA | noncoding (731/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274423 | NA (NA) | noncoding (727/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 2305015 | NA (NA) | 23 (0.330) +33 bp |
7/132 | 10.0 | NA | noncoding (599/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences |
| ? | NC_000913 | = 2305065 | NA (NA) | noncoding (649/655 nt) | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | REP161 (repetitive extragenic palindromic) element; contains 12 REP sequences | |||||
| * | ? | NC_000913 | = 3946688 | 134 (1.280) | 68 (0.690) | 13/186 | 10.2 | 35.1% | intergenic (+81/‑12) | rrlC/rrfC | 23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4171601 | NA (NA) | intergenic (+57/‑36) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon | |||||
| * | ? | NC_000913 | 2726200 = | NA (NA) | 68 (0.690) | 13/186 | 10.2 | NA | intergenic (‑12/+81) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2726224 = | NA (NA) | intergenic (‑36/+57) | rrfG/rrlG | 5S ribosomal RNA of rrnG operon/23S ribosomal RNA of rrnG operon | |||||