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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
393,168 |
T→C |
82.4% |
G310G (GGT→GGC) |
yaiU → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 393,168 | 0 | T | C | 82.4%
| 122.0
/ 18.5
| 51 | G310G (GGT→GGC) | yaiU | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (3/6); new base C (20/22); total (23/28) |
| Fisher's exact test for biased strand distribution p-value = 4.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
TCTTTGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGCCGGTTACGACTTCA > W3110S.gb/393101‑393235
|
tCTTTGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACt < 1:3480569/71‑1 (MQ=255)
tCTTTGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACt < 1:829665/71‑1 (MQ=255)
tCTTTGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACt < 1:602382/71‑1 (MQ=255)
tCTTTGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACt < 1:523062/71‑1 (MQ=255)
cTTTGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACt < 1:3266982/70‑1 (MQ=255)
tttGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACtt > 1:2333474/1‑70 (MQ=255)
tttGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTa > 1:3572402/1‑71 (MQ=255)
tttGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTa > 1:457077/1‑71 (MQ=255)
tgttgATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTAc > 1:3479949/1‑70 (MQ=255)
tgttgATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTACg > 1:1943162/1‑71 (MQ=255)
aTGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTACGTTGAc < 1:1013977/71‑1 (MQ=255)
aTGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTACGTTGAc < 1:361216/71‑1 (MQ=255)
gTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTACGTTGACgg < 1:531003/70‑1 (MQ=255)
gTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTACGTTGACgg < 1:3016556/70‑1 (MQ=255)
gTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACgg < 1:2467106/70‑1 (MQ=255)
gTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACgg < 1:392605/70‑1 (MQ=255)
gTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACgg < 1:2865082/70‑1 (MQ=255)
gTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACgg > 1:2942404/1‑70 (MQ=255)
gCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAg < 1:447348/70‑1 (MQ=255)
gCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAg < 1:3361492/70‑1 (MQ=255)
gAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAGCAcc > 1:2251719/1‑70 (MQ=255)
gAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAGCAcc < 1:3617792/70‑1 (MQ=255)
gAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAGCAcc < 1:162687/70‑1 (MQ=255)
tcACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTACGTTGACGGTAGCACCAACTCCGACg > 1:1215885/1‑71 (MQ=255)
tcACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACg > 1:2026746/1‑71 (MQ=255)
tcACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACg > 1:400465/1‑71 (MQ=255)
tCAACAACGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTgg > 1:1230095/1‑71 (MQ=255)
caacaaCGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGTCGGTAGCACCAACTCCGACGCTTggg > 1:1978706/1‑71 (MQ=255)
caacaaCGACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTggg > 1:2940990/1‑71 (MQ=255)
caacGACCTGTCTGCAACCATGAGCAACGGCACTTAc < 1:519164/37‑1 (MQ=255)
caacGACCTGTCTGCAACCATGAGCAACGGCACTTAc < 1:1018823/37‑1 (MQ=255)
caacGACCTGTCTGCAACCATGAGCAACGGCACTTAc < 1:1524590/37‑1 (MQ=255)
caacGACCTGTCTGCAACCATGAGCAACGGCACTTAc < 1:1800329/37‑1 (MQ=255)
acGACCTGTCTGCAACCATGAGCAACGGCACTTACGt > 1:857747/1‑37 (MQ=255)
gACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGAc < 1:918512/39‑1 (MQ=255)
gACCTGTCTGCAACCATGAGCAACGGCACTTACGTTGAc < 1:2922343/39‑1 (MQ=255)
cAACCATGAGCAACGGTACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGcc < 1:1655732/71‑1 (MQ=255)
cAACCATGAGCAACGGTACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGcc < 1:722400/71‑1 (MQ=255)
aaCCATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGCCg < 1:2304941/71‑1 (MQ=255)
aaCCATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGCCg < 1:3505193/71‑1 (MQ=255)
cATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGGCGCtt > 1:3635441/1‑47 (MQ=39)
cATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCtt > 1:2695524/1‑47 (MQ=255)
cATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCtt > 1:1814429/1‑47 (MQ=255)
cATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCtt > 1:285491/1‑47 (MQ=255)
cATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCtt > 1:1588665/1‑47 (MQ=255)
cATGAGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCtt > 1:599698/1‑47 (MQ=255)
aGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGCCGGTTACGa > 1:1909521/1‑71 (MQ=255)
aGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGCCGGTTACGa > 1:574524/1‑71 (MQ=255)
aGCAACGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGCCGGTTACGa > 1:358294/1‑71 (MQ=255)
cGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGCCGGTTACGACTTCa < 1:157436/71‑1 (MQ=255)
cGGCACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGCCTTCGGTTTGAAAGCCGGTTACGACTTCa < 1:2850335/71‑1 (MQ=255)
|
TCTTTGTTGATGGTAGCTTGAGCTACTCTCACTTCAACAACGACCTGTCTGCAACCATGAGCAACGGTACTTACGTTGACGGTAGCACCAACTCCGACGCTTGGGGCTTCGGTTTGAAAGCCGGTTACGACTTCA > W3110S.gb/393101‑393235
|
| 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
