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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,789,035 |
T→C |
71.1% |
S58P (TCC→CCC) |
ygaF → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,789,035 | 0 | T | C | 71.1%
| 62.1
/ 27.2
| 45 | S58P (TCC→CCC) | ygaF | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (6/7); new base C (15/17); total (21/24) |
| 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 |
GAGTCCGCCCCGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATCAAAA > minE/1788966‑1789102
|
gagTCCGCCCCGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTc < 1:1597900/71‑1 (MQ=255)
tCCGCCCCGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCgg > 1:2692608/1‑71 (MQ=255)
cGCCCCGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCgg > 1:1960049/1‑69 (MQ=255)
gCCCCGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAg < 1:5433210/71‑1 (MQ=255)
ccGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCt < 1:435786/71‑1 (MQ=255)
ccGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCt < 1:2899267/71‑1 (MQ=255)
ccGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCt < 1:2322233/71‑1 (MQ=255)
cGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTg < 1:3803805/71‑1 (MQ=255)
ggCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGa < 1:5209008/71‑1 (MQ=255)
gCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTg > 1:2963058/1‑69 (MQ=255)
tCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAg < 1:4885055/60‑1 (MQ=255)
cACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCTg > 1:4094842/1‑63 (MQ=255)
cACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCTg > 1:1382689/1‑63 (MQ=255)
aCCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAg < 1:4324420/71‑1 (MQ=255)
cAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCTGAAGGCGCAGtt < 1:5689404/71‑1 (MQ=255)
cAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTg < 1:3524561/60‑1 (MQ=255)
cAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGtt < 1:3547602/71‑1 (MQ=255)
aGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCTGAAGGCGCAGttt < 1:3828585/71‑1 (MQ=255)
aCGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTg > 1:1636797/1‑71 (MQ=255)
cGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGaa > 1:4792359/1‑58 (MQ=255)
cGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGaa > 1:1978897/1‑58 (MQ=255)
gCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCTGAAGGCGCAGTTTTGCCTg > 1:1139189/1‑71 (MQ=255)
acaacaGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCg > 1:4554514/1‑71 (MQ=255)
caacaGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCgg < 1:5414406/71‑1 (MQ=255)
acaGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGcc > 1:2655251/1‑45 (MQ=255)
acaGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCggg > 1:2637574/1‑70 (MQ=255)
caGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGaa < 1:1466809/71‑1 (MQ=255)
caGCGGCGTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGaa < 1:3856484/71‑1 (MQ=255)
cgTGATCCATGCCGGGGTCTATTACACGCCCGGCAGCCTg < 1:1973810/40‑1 (MQ=255)
tCCATGCCGGGGTCTATTACACGTCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGccac > 1:1071266/1‑70 (MQ=255)
ccATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGccacc > 1:3914817/1‑70 (MQ=255)
ccATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGccacc > 1:3346477/1‑70 (MQ=255)
cATGCCGGGGTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCaa < 1:2646321/71‑1 (MQ=255)
gggTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCttt < 1:1261548/71‑1 (MQ=255)
gTCTATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTg > 1:4046548/1‑71 (MQ=255)
tATTACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGa > 1:4003565/1‑71 (MQ=255)
ttACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGcc > 1:4701777/1‑61 (MQ=255)
ttACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCtt < 1:3560112/63‑1 (MQ=255)
tACACGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATc > 1:3358569/1‑70 (MQ=255)
acacGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATCa > 1:562286/1‑70 (MQ=255)
cacGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATCaa < 1:2671872/70‑1 (MQ=255)
cacGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATCaa < 1:2489886/70‑1 (MQ=255)
cacGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATCaa < 1:1836370/70‑1 (MQ=255)
cacGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATCaa < 1:897470/70‑1 (MQ=255)
acGCCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATCaaaa > 1:1450205/1‑71 (MQ=255)
|
GAGTCCGCCCCGGCCTGTCACCAGACGGGCCACAACAGCGGCGTGATCCATGCCGGGGTCTATTACACGTCCGGCAGCCTGAAGGCGCAGTTTTGCCTGGCGGGAAACCGCGCCACCAAAGCCTTTTGCGATCAAAA > minE/1788966‑1789102
|
| 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
