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 |
1,619,764 |
C→T |
51.4% |
E4K (GAA→AAA) |
eutI ← |
predicted phosphotransacetylase subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,619,764 | 0 | C | T | 51.4%
| ‑2.5
/ 57.2
| 65 | E4K (GAA→AAA) | eutI | predicted phosphotransacetylase subunit |
| Reads supporting (aligned to +/- strand): ref base C (21/10); new base T (23/10); total (45/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.89e-01 |
CGTTGGTCTAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGGCTGCTTC > minE/1619697‑1619824
|
cGTTGGTCTAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTc > 1:55290/1‑68 (MQ=255)
tAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCa > 1:170155/1‑68 (MQ=255)
tAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCAt > 1:83505/1‑69 (MQ=255)
tAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCAt > 1:2436956/1‑69 (MQ=255)
tAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCAt > 1:814201/1‑69 (MQ=255)
tAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCAt > 1:2522258/1‑69 (MQ=255)
tAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCAt > 1:808646/1‑69 (MQ=255)
tAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCAt > 1:166041/1‑69 (MQ=255)
cGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTct > 1:2658405/1‑68 (MQ=255)
cGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTcc > 1:2325388/1‑69 (MQ=255)
cGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTcc > 1:2321470/1‑69 (MQ=255)
cGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTcc > 1:230625/1‑69 (MQ=255)
aCCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGt > 1:2566387/1‑68 (MQ=255)
aCCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGt > 1:816210/1‑68 (MQ=255)
aCCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTc > 1:3092969/1‑69 (MQ=255)
aCCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTc > 1:508298/1‑69 (MQ=255)
cACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCgt > 1:1095444/1‑69 (MQ=255)
cACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCgt > 1:2360071/1‑69 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:2130220/66‑1 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:3335605/66‑1 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:3182965/66‑1 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:3156240/66‑1 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:2801519/66‑1 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:1890847/66‑1 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:2634814/66‑1 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:1920895/66‑1 (MQ=255)
gggcgCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:828370/66‑1 (MQ=255)
aCGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTgg < 1:2869757/55‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:749619/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:638972/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:3292201/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:3187067/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:3122055/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:1683687/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:2497068/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:2557092/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:2546905/69‑1 (MQ=255)
gCCAGTTCACGACAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTa < 1:2521781/69‑1 (MQ=255)
tCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCgttgt > 1:1551174/1‑44 (MQ=255)
tCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCtt > 1:2049372/1‑55 (MQ=255)
tCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCgg > 1:2073878/1‑67 (MQ=255)
tCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGgct > 1:2466591/1‑69 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCgttgt > 1:199845/1‑39 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCgttgt > 1:2805339/1‑39 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCgttgt > 1:258583/1‑39 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCgtt > 1:2472485/1‑37 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCgt > 1:2036748/1‑36 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGttgttg > 1:1951865/1‑41 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGa > 1:1583762/1‑43 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGAt > 1:2922875/1‑44 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTg > 1:3192478/1‑47 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTg > 1:2303241/1‑47 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTg > 1:1975812/1‑47 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCAcc > 1:2579861/1‑54 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCAcc > 1:2907775/1‑54 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAg > 1:456883/1‑59 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAg > 1:2049847/1‑59 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGgc > 1:777136/1‑63 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGGCTGCTTc > 1:1458817/1‑69 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGGCTGCTTc > 1:3415807/1‑69 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGGCTGCTTc > 1:2704669/1‑69 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGGCTGCTTc > 1:2507453/1‑69 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGGCTGCTTc > 1:2406855/1‑69 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGGCTGCTTc > 1:1948022/1‑69 (MQ=255)
aCAACGTTTAATAATCATTGCGTTTCCCCCAGTCGTGGTTggt > 1:2350056/1‑42 (MQ=38)
aCAACGTTAAATAATCATTGCGTTTCCCCCAGTCGttgttg > 1:989338/1‑41 (MQ=255)
|
CGTTGGTCTAACGCATCCGGAAAAACCACTCTGGCGGGCGCTCGCAACGCCAGTTCACGACAACGTTCAATAATCATTGCGTTTCCCCCAGTCGTTGTTGGATCTGCTTCACCGTTAGCGGCTGCTTC > minE/1619697‑1619824
|
| 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
