mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 61 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,304,549 | 0 | C | T | 78.4% | 45.2 / 17.6 | 37 | intergenic (+156/+559) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 2,304,567 | 0 | C | T | 70.3% | 20.0 / 31.3 | 38 | intergenic (+174/+541) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 339,986 | 0 | G | A | 65.0% | 30.1 / 40.4 | 40 | R73Q (CGA→CAA) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 4,247,540 | 0 | C | A | 64.7% | 98.8 / 104.8 | 102 | Q253K (CAA→AAA) | malK | maltose ABC transporter ATP binding subunit |
| * | NC_000913 | 2,781,973 | 0 | T | C | 62.1% | 117.2 / 187.7 | 153 | I252V (ATT→GTT) | ypjA | adhesin‑like autotransporter YpjA |
| * | NC_000913 | 2,304,575 | 0 | G | A | 61.1% | 9.2 / 31.0 | 36 | intergenic (+182/+533) | eco/mqo | serine protease inhibitor ecotin/malate:quinone oxidoreductase |
| * | NC_000913 | 339,979 | 0 | G | A | 56.4% | 14.9 / 37.0 | 39 | V71M (GTG→ATG) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 4,296,191 | 0 | A | C | 50.0% | 7.1 / 30.8 | 32 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,054,894 | 0 | G | T | 39.0% | 179.8 / 53.9 | 136 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 3,054,888 | 0 | A | C | 36.3% | 203.2 / 19.8 | 137 | V186G (GTA→GGA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,767,443 | 0 | C | A | 35.1% | 265.3 / 19.5 | 135 | intergenic (+88/‑267) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 339,992 | 0 | C | . | 34.2% | 85.3 / 60.4 | 41 | coding (224/321 nt) | yahH | putative uncharacterized protein YahH |
| * | NC_000913 | 2,767,445 | 0 | C | A | 33.3% | 242.9 / 34.5 | 133 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 3,054,886 | 0 | G | T | 32.4% | 216.9 / 50.2 | 137 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 2,990,480 | 0 | C | A | 31.7% | 244.0 / 27.5 | 167 | intergenic (‑120/‑788) | yqeK/ygeG | protein YqeK/TPR repeat‑containing putative chaperone YgeG |
| * | NC_000913 | 1,944,629 | 0 | G | T | 31.4% | 243.1 / 10.2 | 118 | S243* (TCG→TAG) | ruvB | Holliday junction branch migration complex subunit RuvB |
| * | NC_000913 | 2,864,200 | 0 | C | A | 31.3% | 302.4 / 10.1 | 135 | T203N (ACC→AAC) | ygbL | putative 3‑oxo‑tetronate 4‑phosphate decarboxylase YgbL |
| * | NC_000913 | 2,767,444 | 0 | C | A | 31.3% | 273.4 / 14.2 | 135 | intergenic (+89/‑266) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 4,427,822 | 0 | C | A | 31.3% | 278.0 / 14.3 | 147 | intergenic (‑400/+257) | yjfZ/ytfB | DUF2686 domain‑containing protein YjfZ/cell division protein YtfB |
| * | NC_000913 | 4,296,190 | 0 | A | G | 31.2% | 31.1 / 21.9 | 32 | intergenic (+396/+246) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Marginal new junction evidence (lowest skew 10 of 21 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 780629 | 118 (0.990) | 16 (0.180) | 13/446 | 5.4 | 17.3% | noncoding (76/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | 780919 = | 65 (0.730) | intergenic (+1/‑149) | lysW/valZ | tRNA‑Lys/tRNA‑Val | |||||
| * | ? | NC_000913 | = 1381488 | 122 (1.020) | 15 (0.130) | 13/598 | 7.2 | 10.9% | intergenic (+681/‑459) | ycjU/ompG | beta‑phosphoglucomutase/outer membrane porin G |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 2653502 | 114 (0.960) | 10 (0.090) | 8/530 | 8.3 | 9.2% | intergenic (‑47/‑353) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA |
| ? | NC_000913 | 2653825 = | 96 (0.910) | intergenic (‑370/‑30) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||
| * | ? | NC_000913 | = 2521359 | 94 (0.790) | 8 (0.080) | 7/500 | 8.4 | 9.1% | intergenic (+31/+234) | lysV/xapR | tRNA‑Lys/DNA‑binding transcriptional activator XapR |
| ? | NC_000913 | 2521516 = | 81 (0.810) | intergenic (+188/+77) | lysV/xapR | tRNA‑Lys/DNA‑binding transcriptional activator XapR | |||||
| * | ? | NC_000913 | = 4606139 | 124 (1.040) | 9 (0.080) +A |
9/596 | 8.7 | 7.4% | noncoding (27/87 nt) | leuV | tRNA‑Leu |
| ? | NC_000913 | 4606377 = | 102 (0.850) | noncoding (25/87 nt) | leuQ | tRNA‑Leu | |||||
| * | ? | NC_000913 | = 1286906 | 50 (0.420) | 9 (0.080) | 7/558 | 9.2 | 13.9% | coding (198/276 nt) | ychS | putative uncharacterized protein YchS |
| ? | NC_000913 | 1287557 = | 65 (0.580) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 4392437 | 77 (0.650) | 4 (0.050) | 4/442 | 9.3 | 6.4% | intergenic (+2/‑35) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| ? | NC_000913 | 4392661 = | 60 (0.680) | intergenic (+3/‑231) | glyY/yjeV | tRNA‑Gly/uncharacterized protein YjeV | |||||
| * | ? | NC_000913 | = 2817942 | 83 (0.700) | 6 (0.050) | 6/558 | 9.7 | 6.5% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818492 = | 95 (0.850) | noncoding (58/77 nt) | argV | tRNA‑Arg | |||||
| * | ? | NC_000913 | = 781518 | 61 (0.510) | 6 (0.050) | 6/588 | 10.0 | 7.0% | intergenic (+74/‑59) | lysZ/lysQ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 781785 = | 99 (0.840) | intergenic (+133/‑300) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | = 780629 | 119 (1.000) | 4 (0.040) | 3/446 | 10.0 | 5.8% | noncoding (76/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | 781223 = | 41 (0.460) | intergenic (+1/‑146) | lysY/lysZ | tRNA‑Lys/tRNA‑Lys | |||||