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 |
|
A1 F1 I1 R1
|
315 |
33.5 |
1889570 |
98.7% |
1865005 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,410,422 |
T→C |
V97A (GTT→GCT) |
yjfI → |
conserved protein YjfI |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,410,422 | 0 | T | C | 95.0%
| 61.6
/ ‑3.6
| 20 | V97A (GTT→GCT) | yjfI | conserved protein YjfI |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (9/10); total (9/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
TCTTATTAAGAAATCAGAAGATGATGCCGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGTTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAACCTCGCTGGTAGATAACGCATTG > NC_000913/4410344‑4410498
|
tcttATTAAGAAATCAGAAGATGATGCCGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGctt > 1:883875/1‑81 (MQ=255)
attaAGAAATCAGAAGATGATGCCGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGCTTTc < 1:883851/79‑1 (MQ=255)
cAGAAGATGATGCCGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCg > 2:883886/1‑81 (MQ=255)
gaagaTGATGCCGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCt > 2:883889/1‑81 (MQ=255)
gatgatGCCGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTaa < 2:883852/81‑1 (MQ=255)
atgatgCCGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTaaa > 2:883883/1‑81 (MQ=255)
ccGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAAtcttc < 2:883853/80‑1 (MQ=255)
cGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTtctc > 1:883881/1‑81 (MQ=255)
ttGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCtt > 1:883879/1‑81 (MQ=255)
cAGCGTACAACAGGAAGAGTATTACATTGTTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCtt < 2:883854/76‑1 (MQ=255)
cAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTgaga > 1:883880/1‑80 (MQ=255)
cAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTg < 1:883856/77‑1 (MQ=255)
cAGCGTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTg < 2:883857/77‑1 (MQ=255)
cAGCGTAAAACAGGAAGGGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTg < 2:883855/77‑1 (MQ=255)
gTACAACAGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAAcc < 2:883858/81‑1 (MQ=255)
caacaGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAACCTc < 2:883859/80‑1 (MQ=255)
aacaGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAACCTCGc > 1:883882/1‑81 (MQ=255)
caGGAAGAGTATTACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAACCTCGCTg > 2:883898/1‑81 (MQ=255)
ttACATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAACCTCGCTGGTAGATAACGc < 1:883860/81‑1 (MQ=255)
cATTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAACCTCGCTGGTAGATAACGCAtt < 2:883861/81‑1 (MQ=255)
aTTGCTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAACCTCGCTGGTAGATAACGCATTg > 2:883903/1‑81 (MQ=255)
|
TCTTATTAAGAAATCAGAAGATGATGCCGTTGTCATCGGTAGGGATCTCCAGCGTACAACAGGAAGAGTATTACATTGTTTTCGGGGCGTTATCGCTTAAATCTTCTCTTGAAGATATCCTGCTTGAGATAACCTCGCTGGTAGATAACGCATTG > NC_000913/4410344‑4410498
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
