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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,339,708 |
G→A |
A722T (GCC→ACC) |
acnA → |
aconitate hydratase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,339,708 | 0 | G | A | 90.4%
| 149.1
/ 7.2
| 53 | A722T (GCC→ACC) | acnA | aconitate hydratase 1 |
| Reads supporting (aligned to +/- strand): ref base G (0/5); new base A (9/38); total (9/44) |
| Fisher's exact test for biased strand distribution p-value = 5.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.18e-01 |
CGAAAAGACTTTAACTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCGCCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAC > W3110S.gb/1339642‑1339771
|
cGAAAAGACTTTAACTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCaa > 1:2978704/1‑71 (MQ=255)
cGAAAAGACTTTAACTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCaa > 1:2151813/1‑71 (MQ=255)
cTTTAACTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCa < 1:2765069/71‑1 (MQ=255)
cTTTAACTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCa < 1:918253/71‑1 (MQ=255)
cTTTAACTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCa < 1:542574/71‑1 (MQ=255)
cTTTAACTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCa < 1:2198097/71‑1 (MQ=255)
cTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTa < 1:1878535/71‑1 (MQ=255)
cTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTa < 1:3648111/71‑1 (MQ=255)
cGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCTCCTTCACCAATATTCGCATCCGTAATGa < 1:1261590/69‑1 (MQ=255)
cGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGa < 1:1393025/69‑1 (MQ=255)
cGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGa < 1:1097830/69‑1 (MQ=255)
cGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGa < 1:3224714/69‑1 (MQ=255)
gcggcgTGGTAACCATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCa < 1:2993525/53‑1 (MQ=255)
cATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGt > 1:510213/1‑56 (MQ=255)
cATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAgg > 1:4046056/1‑71 (MQ=255)
cATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAgg > 1:2623658/1‑71 (MQ=255)
cATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAgg > 1:3094825/1‑71 (MQ=255)
cATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAgg > 1:1728092/1‑71 (MQ=255)
cATGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAgg > 1:887082/1‑71 (MQ=255)
aTGAAGTGATGATGCGCGGCACCTTCGCCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAggg < 1:3075341/71‑1 (MQ=255)
aTGAAGTGATGATGCGCGGCACCTTCGCCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAggg < 1:696774/71‑1 (MQ=255)
aTGAAGTGATGATGCGCGGCACCTTCGCCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAggg < 1:99408/71‑1 (MQ=255)
aTGAAGTGATGATGCGCGGCACCTTCGCCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAggg < 1:212832/71‑1 (MQ=255)
aTGAAGTGATGATGCGCGGCACCTTCGCCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAggg < 1:1241028/71‑1 (MQ=255)
aTGAAGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAggg < 1:989803/71‑1 (MQ=255)
tGAAGTGATGATGCGCGGCACATTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAgggg > 1:812808/1‑71 (MQ=255)
aaGTGATGATTCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTg < 1:3716619/53‑1 (MQ=255)
aaGTGATGATGCGCGGCACCTTCCCCAATATTCGCATCCGTAATGAAATGGTg < 1:3792438/53‑1 (MQ=255)
aaGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTg < 1:4121433/53‑1 (MQ=255)
aaGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTg < 1:453172/53‑1 (MQ=255)
aaGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTg < 1:2299006/53‑1 (MQ=255)
aaGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTg < 1:2395690/53‑1 (MQ=255)
aaGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTg < 1:2696366/53‑1 (MQ=255)
aaGTGATGATGCGCGGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTg < 1:1166090/53‑1 (MQ=255)
tgatgCGCGGCACCTTCACCAATATTCGCATCCGTAATGa < 1:1635299/40‑1 (MQ=255)
cgcgGCACCTTCACCTATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCa < 1:3212364/71‑1 (MQ=255)
cgcgGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACTCGGCa < 1:3852064/71‑1 (MQ=255)
cgcgGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCa < 1:1673338/71‑1 (MQ=255)
cgcgGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCa < 1:636171/71‑1 (MQ=255)
cgcgGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCa < 1:2012837/71‑1 (MQ=255)
cgcgGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCa < 1:290573/71‑1 (MQ=255)
cgcgGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCa < 1:2326981/71‑1 (MQ=255)
gcgGCACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCa < 1:3280248/70‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:3837723/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:2018206/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:2255163/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:3527024/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:3479495/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:78623/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:3418222/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:905988/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:2312121/71‑1 (MQ=255)
cACCTTCACCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAc < 1:2739467/71‑1 (MQ=255)
|
CGAAAAGACTTTAACTCCTACGGTTCGCGGCGTGGTAACCATGAAGTGATGATGCGCGGCACCTTCGCCAATATTCGCATCCGTAATGAAATGGTGCCTGGCGTTGAAGGGGGGATGACGCGGCATTTAC > W3110S.gb/1339642‑1339771
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
