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 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,014,646 |
T→G |
16.3% |
K475Q (AAA→CAA) ‡ |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,014,646 | 0 | T | G | 16.3%
| 79.0
/ 17.5
| 43 | K475Q (AAA→CAA) ‡ | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base T (13/23); new base G (4/3); total (17/26) |
| Fisher's exact test for biased strand distribution p-value = 4.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.42e-01 |
AATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTGCGCTT > minE/1014578‑1014714
|
aaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTa > 1:2288056/1‑70 (MQ=255)
cTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAgg > 1:662359/1‑70 (MQ=255)
cccTGCGCCTATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCa < 1:2495912/69‑1 (MQ=255)
cccTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGtttttttc > 1:2246774/1‑62 (MQ=255)
cccTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTa > 1:1088155/1‑63 (MQ=255)
cTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCg < 1:3492995/71‑1 (MQ=255)
tGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGt > 1:275644/1‑71 (MQ=255)
cgcCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAg > 1:156096/1‑61 (MQ=255)
cgcCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTc > 1:266624/1‑70 (MQ=255)
cgcCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCa > 1:3186191/1‑71 (MQ=255)
tACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTaa > 1:1909967/1‑52 (MQ=255)
tACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACct > 1:3255236/1‑68 (MQ=255)
aCAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAg > 1:1803974/1‑54 (MQ=255)
cAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTgctgg < 1:495580/71‑1 (MQ=255)
cAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTgctgg < 1:398530/71‑1 (MQ=255)
gCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTgctggc < 1:1049621/67‑1 (MQ=255)
gCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCg < 1:3287757/71‑1 (MQ=255)
cGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCg < 1:2535967/69‑1 (MQ=255)
ggACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCg < 1:2467512/68‑1 (MQ=255)
ggACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGtt < 1:3619571/71‑1 (MQ=255)
ggACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGtt < 1:3375748/71‑1 (MQ=255)
accaccGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTAc < 1:2414400/41‑1 (MQ=255)
gccGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACctgc > 1:3591259/2‑55 (MQ=255)
gccGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGTTACCt > 1:320690/2‑70 (MQ=255)
accGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCtt < 1:3607258/71‑1 (MQ=255)
ccGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGTTACCttt > 1:1037621/1‑71 (MQ=255)
ccGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGTTACCttt > 1:3542282/1‑71 (MQ=255)
ccGATACTGCCAATGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACct > 1:705339/1‑52 (MQ=255)
ccGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTa < 1:2675090/36‑1 (MQ=255)
ccGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACct > 1:1518011/1‑52 (MQ=255)
cGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTc < 1:2295753/71‑1 (MQ=255)
aTACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCt < 1:1736244/66‑1 (MQ=255)
aTACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGc < 1:1788725/71‑1 (MQ=255)
tACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGcc < 1:1873513/71‑1 (MQ=255)
cTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAg < 1:448507/71‑1 (MQ=255)
cAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGcc < 1:1702727/65‑1 (MQ=255)
aaGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTg < 1:1357149/55‑1 (MQ=255)
aGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGAt > 1:1908248/1‑71 (MQ=255)
ggTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATc < 1:1931665/71‑1 (MQ=255)
tAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACctg < 1:2254137/38‑1 (MQ=255)
gaGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCgg < 1:1323498/47‑1 (MQ=255)
gAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGTTACCTTTCGCCAGCATGATCAtg < 1:2703189/70‑2 (MQ=255)
cgTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGTTACCTTTCGCCAGCATGATCATGCTgccgccg < 1:3049470/71‑2 (MQ=255)
gtgtTTATGACACGCGTCGGTAACCTGCTGACTGCGGTTACCTTTCGCCAGCATGATCATGCTgccgccg < 1:1691351/70‑2 (MQ=255)
ttttttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTgcg > 1:3358151/1‑71 (MQ=255)
tttttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCt > 1:1178129/1‑67 (MQ=255)
tttttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCt > 1:2549758/1‑67 (MQ=255)
ttttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTGCGCt > 1:2443948/1‑71 (MQ=255)
ttttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTGCGCt > 1:1725149/1‑71 (MQ=255)
ttttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTGCGCt > 1:117427/1‑71 (MQ=255)
tttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTgc > 1:66361/1‑67 (MQ=255)
tttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTGCGCtt > 1:3504993/1‑71 (MQ=255)
ttACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTGCGCtt < 1:63543/70‑1 (MQ=255)
|
AATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGCCTTTCGCCAGCATGATCATACTTCCGCCCTGCGCTT > minE/1014578‑1014714
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
