Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,968,732 |
G→T |
54.6% |
intergenic (‑103/‑175) |
tktA ← / → yggG |
transketolase 1, thiamin‑binding/predicted peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,968,732 | 0 | G | T | 54.6%
| 3.8
/ 98.2
| 86 | intergenic (‑103/‑175) | tktA/yggG | transketolase 1, thiamin‑binding/predicted peptidase |
| Reads supporting (aligned to +/- strand): ref base G (9/30); new base T (32/15); total (41/45) |
| Fisher's exact test for biased strand distribution p-value = 3.63e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.96e-01 |
GACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCA > minE/1968669‑1968798
|
gACTTGACGACAGCGCGTTTTGGGCTACTCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTc < 1:963186/68‑1 (MQ=255)
gACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTc < 1:1880135/68‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCTGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:2554962/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:791793/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:580313/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:2612807/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:1638993/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:3002481/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:1737188/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:2856754/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:1765200/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:1866459/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:2819091/69‑1 (MQ=255)
tGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTa < 1:1834992/69‑1 (MQ=255)
gacgacAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTAc > 1:2823584/1‑69 (MQ=255)
gacgacAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTAc > 1:2338340/1‑69 (MQ=255)
gacgacAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTAc > 1:1786264/1‑69 (MQ=255)
gacgacAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTAc > 1:496686/1‑69 (MQ=255)
gacgacAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTAc > 1:817464/1‑69 (MQ=255)
cgcgTTTTGGGCTACGCCGGAAAATTTGCGAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACa > 1:2805984/1‑69 (MQ=255)
cgcgTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACa > 1:2404373/1‑69 (MQ=255)
ttGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCttt > 1:3191358/1‑69 (MQ=255)
ttGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCttt > 1:2258616/1‑69 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACAt > 1:577543/1‑50 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATgg > 1:2471384/1‑52 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACAt > 1:976858/1‑57 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:259463/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2874901/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:1737660/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:1721459/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:1076992/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:462502/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2794500/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:293685/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:883651/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2937500/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:1660536/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2583036/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:3212841/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2515959/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2506229/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2478212/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:386989/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:1065056/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2426834/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:3416975/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2392178/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:2221622/1‑68 (MQ=255)
aCGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:3315421/1‑68 (MQ=255)
aCGCCGCAAAATTTGCCAACAATTTACCGCAAGCCGCTCGTCATGTACATGGAACATCCTTTTGCCGc > 1:7978/1‑68 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:1134656/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:1838362/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:1388549/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:3113810/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:3117060/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:446416/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:700641/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:106509/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:849697/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:1992645/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:935504/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:2145772/39‑1 (MQ=255)
gCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:2181900/39‑1 (MQ=255)
ccGGAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:1776937/38‑1 (MQ=255)
ggAAAATTTGCCAACAATTTACCGCAAGCCGCTCGt < 1:3013859/36‑1 (MQ=255)
ggAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGa < 1:1139424/69‑1 (MQ=255)
ggAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGa < 1:2662925/69‑1 (MQ=255)
ggAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGa < 1:2658936/69‑1 (MQ=255)
ggAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGa < 1:2110596/69‑1 (MQ=255)
aaaaTTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGaaa < 1:1044491/69‑1 (MQ=255)
aaaaTTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGaaa < 1:398577/69‑1 (MQ=255)
aaaaTTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGaaa < 1:3411810/69‑1 (MQ=255)
acaaTTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCa > 1:2936787/1‑69 (MQ=255)
acaaTTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCa > 1:3218849/1‑69 (MQ=255)
acaaTTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCa < 1:3216687/69‑1 (MQ=255)
acaaTTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCa < 1:398760/69‑1 (MQ=255)
acaaTTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCa < 1:463189/69‑1 (MQ=255)
acaaTTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCa < 1:3045340/69‑1 (MQ=255)
acaaTTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCa > 1:2757084/1‑69 (MQ=255)
aaTTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGaaa < 1:872279/56‑1 (MQ=255)
tACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCg < 1:2795013/69‑1 (MQ=255)
tACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCg > 1:3036821/1‑69 (MQ=255)
tACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCg > 1:2126672/1‑69 (MQ=255)
tACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCg < 1:3190331/69‑1 (MQ=255)
tACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCg < 1:2362057/69‑1 (MQ=255)
cGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCa < 1:2771482/68‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:2464199/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:866945/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:299329/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:1895785/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:726181/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:2949210/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:520962/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:3113302/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:46039/69‑1 (MQ=255)
gcgcgTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCa < 1:3292458/69‑1 (MQ=255)
|
GACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAATTTACCGCAAGCCGCGCGTCATGTACATGGAACATCCTTTTGCCGCTTCAGAAATCTCTGGATCATGCTCGCATGTTGCGCA > minE/1968669‑1968798
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
