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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,087,666 |
C→T |
79.0% |
T54I (ACC→ATC) |
yhaH → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,087,666 | 0 | C | T | 79.0%
| 115.8
/ 26.9
| 62 | T54I (ACC→ATC) | yhaH | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (6/7); new base T (24/25); total (30/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.07e-01 |
ATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCGCCGCCTGCAC > minE/2087599‑2087733
|
atcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCt > 1:1187893/1‑71 (MQ=255)
atcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCt < 1:3187750/71‑1 (MQ=255)
tcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCt < 1:3774513/70‑1 (MQ=255)
tcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCt < 1:2280484/70‑1 (MQ=255)
cTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTga > 1:1358747/1‑71 (MQ=255)
tttACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTga > 1:285275/1‑70 (MQ=255)
ttACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTgac > 1:2607582/1‑70 (MQ=255)
tACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTgac < 1:4673653/69‑1 (MQ=255)
cGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACa < 1:3046039/71‑1 (MQ=255)
gTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTgacgac < 1:3068386/69‑1 (MQ=255)
gTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTgacgac < 1:5321452/69‑1 (MQ=255)
gTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACaa < 1:1229606/71‑1 (MQ=255)
tCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACaa > 1:1258145/1‑69 (MQ=255)
gTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACaa < 1:2021288/67‑1 (MQ=255)
cTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACgg < 1:4142214/71‑1 (MQ=255)
ggCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTAtt < 1:648000/71‑1 (MQ=255)
gctgctGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCTTCCTg < 1:4869337/52‑1 (MQ=39)
ctgcttGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCTAAGGCATCCTgacgac < 1:5491637/56‑1 (MQ=255)
ctgctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCt < 1:3627452/71‑1 (MQ=255)
gctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCt < 1:2178460/48‑1 (MQ=255)
gctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCt < 1:3135852/48‑1 (MQ=255)
gctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACa < 1:3500164/55‑1 (MQ=255)
gctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACa < 1:2716467/55‑1 (MQ=255)
ctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTgg < 1:1812278/70‑1 (MQ=255)
tgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAAt > 1:3898120/1‑55 (MQ=255)
tgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAAt > 1:5563733/1‑55 (MQ=255)
tgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGgtg > 1:5213266/1‑71 (MQ=255)
tgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGgtg > 1:3242275/1‑71 (MQ=255)
tgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGgtg > 1:3000439/1‑71 (MQ=255)
ggATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGgtgt > 1:1723163/1‑71 (MQ=255)
tAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTg < 1:5294514/43‑1 (MQ=255)
tAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGtttt < 1:2315045/71‑1 (MQ=255)
tAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGtttt < 1:4412364/71‑1 (MQ=255)
aaaaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACg > 1:2348870/1‑55 (MQ=255)
aaaaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACg > 1:353590/1‑55 (MQ=255)
aaaaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACg > 1:3646611/1‑55 (MQ=255)
aaaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTa > 1:4723063/1‑71 (MQ=255)
aaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTga > 1:2445160/1‑41 (MQ=255)
aaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTga > 1:3726131/1‑41 (MQ=255)
aTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGgtgt > 1:5176244/1‑64 (MQ=255)
aTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGgtgt > 1:5490251/1‑64 (MQ=255)
tGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCg > 1:1967670/1‑71 (MQ=255)
ttAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgtg < 1:1221765/71‑1 (MQ=255)
ttAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgtg < 1:1656680/71‑1 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgtggt > 1:4076421/1‑71 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa < 1:2316346/50‑1 (MQ=255)
ggCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgtggtg < 1:5102127/71‑1 (MQ=255)
ggCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGttttt > 1:2022541/1‑58 (MQ=255)
cgcgCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCa < 1:4942969/71‑1 (MQ=255)
gcgcTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAg > 1:1573596/1‑71 (MQ=255)
gcgcTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa > 1:1324906/1‑39 (MQ=255)
gcgcTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa > 1:1493031/1‑39 (MQ=255)
gcgcTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa > 1:1559459/1‑39 (MQ=255)
gcgcTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa > 1:1911577/1‑39 (MQ=255)
gcgcTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAg < 1:864778/71‑1 (MQ=255)
gcgcTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAg < 1:5368521/71‑1 (MQ=255)
gcgcTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAg < 1:2040506/71‑1 (MQ=255)
gcTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGt < 1:596385/70‑1 (MQ=255)
ggtggCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:2033228/1‑49 (MQ=255)
gCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTccgccg < 1:2810014/70‑1 (MQ=255)
cGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:3774137/1‑44 (MQ=255)
gCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCGCCGCCTGCAc > 1:4979097/1‑71 (MQ=255)
|
ATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCGCCGCCTGCAC > minE/2087599‑2087733
|
| 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
