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 |
354,489 |
C→T |
40.7% |
S268S (TCC→TCT) |
cysS → |
cysteinyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 354,489 | 0 | C | T | 40.7%
| 33.1
/ 51.7
| 76 | S268S (TCC→TCT) | cysS | cysteinyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base C (12/33); new base T (19/12); total (31/45) |
| Fisher's exact test for biased strand distribution p-value = 4.11e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.24e-01 |
ATGGTCAGTATGTGAACTACTGGATGCACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAATACTACGACGCGGAAACCGTGCGTT > minE/354425‑354556
|
atgGTCAGTATGTGAACTACTGGATGCACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAAt > 1:19083/1‑69 (MQ=255)
atgGTCAGTATGTGAACTACTGGATGCACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAAt > 1:1638398/1‑69 (MQ=255)
atgGTCAGTATGTGAACTACTGGATGCACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAAt > 1:3321352/1‑69 (MQ=255)
tATGTGAACTACTGGATGCACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGt > 1:3020852/1‑69 (MQ=255)
aTGTGAACTACTGGATGCACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTa < 1:2547101/69‑1 (MQ=255)
tgtgAACTACTGGATGCACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTaa > 1:985796/1‑69 (MQ=255)
cACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTgcgc < 1:1831887/69‑1 (MQ=255)
cACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTgcgc > 1:2261986/1‑69 (MQ=255)
cACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTgcgc > 1:2440654/1‑69 (MQ=255)
cACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTgcgc < 1:2687502/69‑1 (MQ=255)
cACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTgcgc > 1:883165/1‑69 (MQ=255)
gatggtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGc > 1:3434034/1‑68 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTTGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:2064157/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGGTGaaa < 1:2625940/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:3434243/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:2206775/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:2186396/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:371494/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:998890/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:1428794/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:1208413/69‑1 (MQ=255)
gtgatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:1639643/69‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:979254/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:2879063/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:2820974/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:1489747/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:428049/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:2203867/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:698668/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:718221/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:1830949/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:1714773/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAActtc < 1:2042608/43‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:3065381/67‑1 (MQ=255)
gatggtTGACCGCGAGAAGATGGCCAAATCGCTGGGTAActtc < 1:1436642/43‑1 (MQ=255)
attgtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAAtac < 1:2101674/66‑1 (MQ=255)
atggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAAtac < 1:825544/69‑1 (MQ=255)
atggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAAtac < 1:1285522/69‑1 (MQ=255)
atggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAAtac < 1:3269909/69‑1 (MQ=255)
atggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAAtac < 1:2818854/69‑1 (MQ=255)
atggtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAAtac < 1:3154716/69‑1 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:433740/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:346634/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:975862/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:450180/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:3393803/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:3327219/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:1791371/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:3084287/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:3013652/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:1724244/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:1704700/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:2064074/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:1623802/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:1560094/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:2289937/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:2769218/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:2782569/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:1372647/1‑68 (MQ=255)
tggtTGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAtac > 1:2802933/1‑68 (MQ=255)
gtTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAAtactac > 1:1271981/1‑69 (MQ=255)
tgcccGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGaaa < 1:12639/58‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:630835/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:1145980/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:1191972/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:3219873/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:798050/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:2139808/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:3369772/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:3304961/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:439861/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:1438285/63‑1 (MQ=255)
tGACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:3426158/63‑1 (MQ=255)
gACCGCGAGAAGATGTCTAAATCGCTGGGTAACTTCTTCACCGTGCGTGATGTGCTGAAAta < 1:1936163/62‑1 (MQ=255)
aTGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAATACTACGACGCGGAAACCGTg > 1:1580406/1‑69 (MQ=255)
aTGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAATACTACGACGCGGAAACCGTg > 1:1303297/1‑69 (MQ=255)
cAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAATACTACGACGCGGAAACCGTGCGtt < 1:2073716/68‑1 (MQ=255)
|
ATGGTCAGTATGTGAACTACTGGATGCACTCGGGGATGGTGATGGTTGACCGCGAGAAGATGTCCAAATCGCTGGGTAACTTCTTTACCGTGCGCGATGTGCTGAAATACTACGACGCGGAAACCGTGCGTT > minE/354425‑354556
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
