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 |
1,141,923 |
T→C |
50.0% |
I122I (ATT→ATC) |
katE → |
hydroperoxidase HPII(III) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,141,923 | 0 | T | C | 50.0%
| ‑4.7
/ 45.7
| 52 | I122I (ATT→ATC) | katE | hydroperoxidase HPII(III) |
| Reads supporting (aligned to +/- strand): ref base T (13/13); new base C (14/12); total (27/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCTGCTGGAAGATTTTATTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTA > minE/1141865‑1141989
|
cGCTGCTGGAAGATTTTATTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTa < 1:935614/69‑1 (MQ=255)
cGCTGCTGGAAGATTTTATTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTa < 1:1668748/69‑1 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:1332185/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:588384/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:440700/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:3307463/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:166430/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:3032586/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:1793139/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:2432466/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:2412212/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:2334/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:2303340/1‑61 (MQ=255)
tgctgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:2270510/1‑61 (MQ=255)
tgctgGAAGATTATATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:2513008/1‑61 (MQ=255)
tgatgGAAGATTTTATTCTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGa > 1:3250496/4‑61 (MQ=255)
gctcGAAGATTTTATTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTATTGt < 1:3301336/69‑1 (MQ=255)
aTTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCgg < 1:3391947/68‑1 (MQ=255)
aTTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCgg < 1:3344102/68‑1 (MQ=255)
aTTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCgg < 1:2365898/68‑1 (MQ=255)
aTTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCgg < 1:1290715/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:2607961/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:151346/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:3131786/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:3422162/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:1773120/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:517458/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:1831071/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:685620/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:2400813/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:206078/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:2079485/68‑1 (MQ=255)
cTGCGCGAGAAAATCACTCACTTTGACCATGAGCGCATCCCGGAACGTATTGTTCATGCACGCGGATc < 1:954670/68‑1 (MQ=255)
cTTTGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCgg < 1:1407433/45‑1 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCgg > 1:29925/1‑43 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAg > 1:2810952/1‑68 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAg > 1:2814911/1‑68 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:1458027/1‑69 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:3078272/1‑69 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:429719/1‑69 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:700611/1‑69 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:3349027/1‑69 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:3082245/1‑69 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:21351/1‑69 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:2110591/1‑69 (MQ=255)
ttGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGc > 1:2158500/1‑69 (MQ=255)
aGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATaaaa > 1:1399880/1‑69 (MQ=255)
aTTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTa < 1:2577203/69‑1 (MQ=255)
aTTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTa < 1:2487018/69‑1 (MQ=255)
aTTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTa < 1:2478433/69‑1 (MQ=255)
aTTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTa < 1:2023492/69‑1 (MQ=255)
aTTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTa < 1:723351/69‑1 (MQ=255)
|
CGCTGCTGGAAGATTTTATTCTGCGCGAGAAAATCACCCACTTTGACCATGAGCGCATTCCGGAACGTATTGTTCATGCACGCGGATCAGCCGCTCACGGTTATTTCCAGCCATATAAAAGCTTA > minE/1141865‑1141989
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
