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 |
|
A71 F1 I1 R1
|
18 |
59.4 |
3821164 |
95.9% |
3664496 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,163,452 |
A→G |
D866G (GAT→GGT) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,163,452 | 0 | A | G | 90.4%
| 179.5
/ 6.9
| 52 | D866G (GAT→GGT) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base A (1/4); new base G (28/19); total (29/23) |
| Fisher's exact test for biased strand distribution p-value = 1.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GACACCAAGCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGATGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGTTACG > REL606/4163379‑4163519
|
gACACCAAGCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTg > 1:900456/1‑76 (MQ=255)
gACACCAAGCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGATg < 2:1181773/76‑1 (MQ=255)
ccAAGCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATc < 2:375291/76‑1 (MQ=255)
cAAGCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATcc < 1:1473659/76‑1 (MQ=255)
cAAGCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATcc > 1:31169/1‑76 (MQ=255)
cAAGCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGATGAATcc < 2:1178167/76‑1 (MQ=255)
gCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGt < 1:1227433/76‑1 (MQ=255)
gCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGt < 1:1700808/76‑1 (MQ=255)
cTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTa > 2:750024/1‑76 (MQ=255)
cTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTa > 2:1410668/1‑76 (MQ=255)
cTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTa > 2:449877/1‑76 (MQ=255)
tGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTAt < 2:961875/76‑1 (MQ=255)
tGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTAt > 2:1769720/1‑76 (MQ=255)
gggCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCg < 2:1320575/76‑1 (MQ=255)
ccAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGATGAATCCGGTATCGttt < 2:1026633/76‑1 (MQ=255)
agaagaGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTtat > 1:166940/1‑76 (MQ=255)
gaagaGATCCCCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGATGAATCCGGTATCGTTtata < 2:286158/76‑1 (MQ=255)
aagaGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTatat > 1:1488/1‑76 (MQ=255)
aagaGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTatat > 2:159985/1‑76 (MQ=255)
aagaGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTatat < 2:692699/76‑1 (MQ=255)
agaTCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTgg < 1:504651/76‑1 (MQ=255)
agaTCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTgg > 1:1253627/1‑76 (MQ=255)
gCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAg < 1:532484/76‑1 (MQ=255)
cTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGt > 1:1800707/1‑76 (MQ=255)
gACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGa > 2:759457/1‑76 (MQ=255)
gACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGa > 1:1120723/1‑76 (MQ=255)
gACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGATGAATCCGGTATCGTTTATATTGGTGCGGAAGTGa > 2:1512017/1‑76 (MQ=255)
aCATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGAc < 2:684856/76‑1 (MQ=255)
tCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCgg > 1:579339/1‑76 (MQ=255)
cccGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGt > 1:804897/1‑76 (MQ=255)
cccGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGt > 1:1232927/1‑76 (MQ=255)
cccGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGt < 2:1658421/76‑1 (MQ=255)
ccGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTg < 2:707829/76‑1 (MQ=255)
aaCGTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCg > 2:1312580/1‑76 (MQ=255)
gTGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACa > 2:776207/1‑76 (MQ=255)
tGGGTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACAt > 1:1643556/1‑76 (MQ=255)
gggTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACAtt > 2:1360635/1‑76 (MQ=255)
gTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCt > 2:555719/1‑76 (MQ=255)
gTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCt < 2:166940/76‑1 (MQ=255)
gTGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCt < 2:1421103/76‑1 (MQ=255)
tGAAGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCtg < 2:1281355/76‑1 (MQ=255)
aaGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCtggt > 2:1257864/1‑76 (MQ=255)
aGCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCtggtt < 1:413941/76‑1 (MQ=255)
gCTGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCtggttg < 2:181441/76‑1 (MQ=255)
tGCGCTCTCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCtggttggt > 1:1411611/1‑76 (MQ=255)
ctctCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAgg > 2:465449/1‑76 (MQ=255)
ctctCCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAgg > 1:566058/1‑76 (MQ=255)
tctcCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGt > 1:43650/1‑76 (MQ=255)
tctcCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGt > 2:1357194/1‑76 (MQ=255)
ctcCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGtt > 1:1387531/1‑76 (MQ=255)
ctcCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGtt > 1:1306963/1‑76 (MQ=255)
ctcCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGtt < 1:1090539/76‑1 (MQ=255)
tcCAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGTTa < 2:1485949/76‑1 (MQ=255)
cAAACTGGGTGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGTTACg < 2:649514/76‑1 (MQ=255)
|
GACACCAAGCTGGGGCCAGAAGAGATCACCGCTGACATCCCGAACGTGGGTGAAGCTGCGCTCTCCAAACTGGATGAATCCGGTATCGTTTATATTGGTGCGGAAGTGACCGGTGGCGACATTCTGGTTGGTAAGGTTACG > REL606/4163379‑4163519
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
