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 |
2,704,968 |
C→T |
24.1% |
Y393Y (TAC→TAT) |
damX → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,704,968 | 0 | C | T | 24.1%
| 88.3
/ 21.5
| 70 | Y393Y (TAC→TAT) | damX | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (25/28); new base T (3/14); total (28/42) |
| Fisher's exact test for biased strand distribution p-value = 4.55e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.95e-01 |
TGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGGCCAAAAACCC > minE/2704917‑2705033
|
tGAAACGACGCGTAATGGTCGGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:1104352/1‑68 (MQ=255)
tGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:2995122/1‑68 (MQ=255)
tGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:3431056/1‑68 (MQ=255)
tGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:438460/1‑68 (MQ=255)
tGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:1783072/1‑68 (MQ=255)
tGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:53021/1‑68 (MQ=255)
tGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:2420912/1‑68 (MQ=255)
tGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:2494289/1‑68 (MQ=255)
tGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:3083650/1‑68 (MQ=255)
tGAAACGACGCGTAATCGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAgg > 1:3226932/1‑68 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:2370109/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:3223518/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:2773880/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:3322036/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:2818385/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:1043402/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:352476/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:363664/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:1964268/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:1784522/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:1511291/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:100691/69‑1 (MQ=255)
gacgCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:1361603/69‑1 (MQ=255)
acgCGTAATGGTCAGCCGTTGTATGTCCTGGTTTCTGGCGTGTATGCTTCGAAAGAAGAGGCGaaaaa < 1:2563/68‑1 (MQ=255)
aTGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTGGAaag < 1:3276341/48‑1 (MQ=255)
aTGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAaag < 1:664015/48‑1 (MQ=255)
gTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTa > 1:1139510/1‑69 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:2876643/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:837117/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:3075923/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:573777/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:519626/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:3259450/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:390124/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:2039272/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:2872012/68‑1 (MQ=255)
cAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:2274857/68‑1 (MQ=255)
cAGCCGTCGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:2219238/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:1048513/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:827019/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:2923186/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:679187/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:1052463/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:491869/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:300789/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:3415007/68‑1 (MQ=255)
aTGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:3308593/68‑1 (MQ=255)
tGTCCTGGTTTCTGGCGTGTACGCTTCGAAagaaga > 1:2821030/1‑36 (MQ=255)
tGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca > 1:2234736/1‑67 (MQ=255)
tGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:2006603/67‑1 (MQ=255)
tGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca > 1:2983604/1‑67 (MQ=255)
gTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagca < 1:2790990/66‑1 (MQ=255)
tCCTTGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTAc < 1:418743/55‑1 (MQ=255)
tCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCt > 1:2243564/1‑53 (MQ=255)
tCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTa > 1:2249874/1‑54 (MQ=255)
tCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTa > 1:2305253/1‑54 (MQ=255)
tCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTa > 1:828079/1‑54 (MQ=255)
tCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTa > 1:2903182/1‑54 (MQ=255)
tCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTa > 1:2932879/1‑54 (MQ=255)
tCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTa > 1:1327569/1‑54 (MQ=255)
ttCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAg < 1:3168796/67‑1 (MQ=255)
ttCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAg < 1:2232981/67‑1 (MQ=255)
ttCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGAGGTATCTACATTGCCAGCAGATGTCCAg < 1:2827190/67‑1 (MQ=255)
tCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGGc > 1:3001947/1‑68 (MQ=255)
tCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGGc > 1:1427481/1‑68 (MQ=255)
tCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGGc > 1:355915/1‑68 (MQ=255)
tCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGGc > 1:2505143/1‑68 (MQ=255)
gtATGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGACCAAAAAccc > 1:1421325/1‑69 (MQ=255)
gtATGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGACCAAAAAccc > 1:541870/1‑69 (MQ=255)
gtATGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGACCAAAAAccc > 1:328365/1‑69 (MQ=255)
cGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagcag < 1:2940048/47‑1 (MQ=255)
cGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCcagcag < 1:2027733/47‑1 (MQ=255)
|
TGAAACGACGCGTAATGGTCAGCCGTGGTATGTCCTGGTTTCTGGCGTGTACGCTTCGAAAGAAGAGGCGAAAAAAGCGGTATCTACATTGCCAGCAGATGTCCAGGCCAAAAACCC > minE/2704917‑2705033
|
| 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
