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 F21 I0 R2
|
44 |
10.9 |
588504 |
78.3% |
460798 |
57.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
636,766 |
A→G |
100% |
I1248V (ATT→GTT) |
mukB → |
fused chromosome partitioning proteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 636,766 | 0 | A | G | 90.9%
| 28.1
/ ‑3.1
| 11 | I1248V (ATT→GTT) | mukB | fused chromosome partitioning proteins |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (10/0); total (11/0) |
| 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 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CCCGTGAACAGAAACTGGCGATCAGTTCCCGCAGCGTGGCGAACATCATTCGCAAAACCATTCAGCGCGAGCAGAACCGTATCCGTATGCTCAACCAGGGGTTGCAGAACGTATCGTTTGG > minE/636707‑636827
|
cccGTGAACAGAAACTGGCGATCAGTTCCCGCAGCGTGGCGAACATCATTCGCAAAACCa > 1:137348/1‑60 (MQ=255)
cccGTGAACAGAAACTGGCGATCAGTTCCCGCAGCGTGGCGAACATCATTCGCAAAACCa > 1:567955/1‑60 (MQ=255)
cccGTGAACAGAAACTGGCGATCAGTTCCCGCAGCGTGGCGAACATCATTCGCAAAACCa > 1:366250/1‑60 (MQ=255)
cccGTGAACAGAAACTGGCGATCAGTTCCCGCAGCGTGGCGAACATCATTCGCAAAACCa > 1:304686/1‑60 (MQ=255)
cccGTGAACAGAAACTGGCGATCAGTTCCCGCAGCGTGGCGAACATCATTCGCAAAACCa > 1:248731/1‑60 (MQ=255)
cAGTTCCCGCAGCGTGGCGAACATCATTCGCAAAACCATTCAGCGCGAGCAGAAccg > 1:11891/1‑57 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:169819/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:309341/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:312511/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:316189/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:137688/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:398821/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:447948/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:506222/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:547837/1‑62 (MQ=255)
cGTGGCGAACATCATTCGCAAAACCGTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAAcc > 1:567424/1‑62 (MQ=255)
aTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAACCAGGGGTTGCAGAACGTATCGTTTgg < 1:261681/62‑1 (MQ=255)
aTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAACCAGGGGTTGCAGAACGTATCGTTTgg < 1:383697/62‑1 (MQ=255)
aTTCAGCGCGAGCAGAACCGTATCCGTATGCTCAACCAGGGGTTGCAGAACGTATCGTTTgg < 1:453827/62‑1 (MQ=255)
|
CCCGTGAACAGAAACTGGCGATCAGTTCCCGCAGCGTGGCGAACATCATTCGCAAAACCATTCAGCGCGAGCAGAACCGTATCCGTATGCTCAACCAGGGGTTGCAGAACGTATCGTTTGG > minE/636707‑636827
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
