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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
352,300 |
C→T |
27.6% |
T124I (ACT→ATT) |
prpE → |
predicted propionyl‑CoA synthetase with ATPase domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 352,300 | 0 | C | T | 27.6%
| 78.5
/ 34.3
| 51 | T124I (ACT→ATT) | prpE | predicted propionyl‑CoA synthetase with ATPase domain |
| Reads supporting (aligned to +/- strand): ref base C (23/13); new base T (7/7); total (30/21) |
| Fisher's exact test for biased strand distribution p-value = 5.22e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.69e-01 |
CATTGGGTGTGCAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAGCGT > W3110S.gb/352234‑352369
|
cATTGGGTGTGCAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTATTctg > 1:3002201/1‑71 (MQ=255)
cATTGGGTGTGCAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTctg > 1:324220/1‑71 (MQ=255)
aTTGGGTGTGCAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTctg < 1:118622/70‑1 (MQ=255)
tGGGTGTGCAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTctgctg > 1:2513166/1‑71 (MQ=255)
gggTGTGCAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTATTCTGCTgg > 1:3136995/1‑71 (MQ=255)
tgCAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTATTctg < 1:3042828/62‑1 (MQ=255)
tgCAGCGCGGAGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTATTctg < 1:858975/62‑1 (MQ=255)
cAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTATTCTGCTGGCCTgcgc > 1:2926327/1‑71 (MQ=255)
cAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTATTCTGCTGGCCTgagc > 1:1905496/1‑71 (MQ=255)
cAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTgcgc > 1:3722342/1‑71 (MQ=255)
gcgcGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCt > 1:554934/1‑65 (MQ=255)
gcggcgATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTgcgcgcgc < 1:2144785/71‑1 (MQ=255)
gcggcgATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTgcgcgcg > 1:1617525/1‑70 (MQ=255)
cggcgATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTgcgcgcgc < 1:3363439/70‑1 (MQ=255)
ggcgATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTActct < 1:1723006/53‑1 (MQ=255)
cgATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTg > 1:3517502/1‑71 (MQ=255)
ggTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTa < 1:3544260/71‑1 (MQ=255)
ggTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTgg > 1:886891/1‑60 (MQ=255)
gtgtATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACt < 1:804221/70‑1 (MQ=255)
gtgtATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACt < 1:1685779/70‑1 (MQ=255)
tataTGCCGATGATTGCCGAAGCGCATATTATTCTGCTGGCCt < 1:3601447/43‑1 (MQ=255)
tataTGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTa < 1:4033807/61‑1 (MQ=255)
tataTGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTAtt < 1:1922073/63‑1 (MQ=255)
tatGCCGATGATTGCCGAAGCGCATATTATTCTGCTGGCCTGCGCGCGCa > 1:2824423/1‑50 (MQ=255)
tatGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCAt > 1:527496/1‑51 (MQ=255)
tGCCGATGATTGCCGAAGCGCATATTATTCTGCTGGCCt > 1:3999883/1‑39 (MQ=255)
tGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTg > 1:1584044/1‑40 (MQ=255)
tGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCa > 1:1433889/1‑48 (MQ=255)
tGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCggtggt > 1:3090634/1‑70 (MQ=255)
cGATGATTGCCGAAGCGCATATTATTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGttt < 1:2185349/71‑1 (MQ=255)
cGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGttt < 1:370548/71‑1 (MQ=255)
gatgatTGCCGAAGCGCATATTATTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTtg < 1:3108461/71‑1 (MQ=255)
atgatTGCCGAAGCGCATATTATTCTGCTGGCCTgcgcgcg < 1:211866/41‑1 (MQ=255)
atgatTGCCGAAGCGCATATTAATCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGttt < 1:3029431/69‑1 (MQ=255)
gatTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTtggtg > 1:846469/1‑71 (MQ=255)
atTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTtggtg > 1:4584009/1‑70 (MQ=255)
atTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTtggtg > 1:4400190/1‑70 (MQ=255)
ttGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCa > 1:1655321/1‑52 (MQ=255)
ttGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTc < 1:3256106/55‑1 (MQ=255)
ttGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGa > 1:3299229/1‑71 (MQ=255)
gCCGAAGCGCATATTACTCTGCTGGCGTGCGCGCGCATTGGCGCTATTCa > 1:2322246/1‑50 (MQ=255)
gCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGtt > 1:2966889/1‑62 (MQ=255)
cGAAGCGCATATTATTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGAttt < 1:4613825/70‑1 (MQ=255)
tattatTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCa > 1:1634537/1‑39 (MQ=255)
tatTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCggtgg < 1:3403879/47‑1 (MQ=255)
atTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCGCTCGGTGGTGTTTGGTGGATTTGCCTCg < 1:4463780/66‑1 (MQ=255)
atTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAg > 1:4417965/1‑71 (MQ=255)
atTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAg > 1:1681711/1‑71 (MQ=255)
ttATTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAGc > 1:3219586/1‑71 (MQ=255)
ttACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGca > 1:1879215/1‑67 (MQ=255)
ttACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAg < 1:1198186/70‑1 (MQ=255)
ttACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAGc > 1:1554113/1‑71 (MQ=255)
ttACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAGc > 1:506129/1‑71 (MQ=255)
ctctGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAGCGt < 1:1019394/70‑1 (MQ=255)
ctctGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGACTCGCACAGCGt < 1:2721707/70‑1 (MQ=255)
|
CATTGGGTGTGCAGCGCGGCGATCGGGTGCTGGTGTATATGCCGATGATTGCCGAAGCGCATATTACTCTGCTGGCCTGCGCGCGCATTGGCGCTATTCACTCGGTGGTGTTTGGTGGATTTGCCTCGCACAGCGT > W3110S.gb/352234‑352369
|
| 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
