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 I0 R2
|
532 |
47.8 |
3863072 |
94.9% |
3666055 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,563,589 |
T→A |
100% |
K207M (AAG→ATG) |
iadA ← |
isoaspartyl dipeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,563,589 | 0 | T | A | 94.3%
| 92.0
/ ‑1.2
| 35 | K207M (AAG→ATG) | iadA | isoaspartyl dipeptidase |
| Reads supporting (aligned to +/- strand): ref base T (0/2); new base A (12/21); total (12/23) |
| Fisher's exact test for biased strand distribution p-value = 5.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCTTTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAACGCG > W3110S.gb/4563524‑4563653
|
tCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTa < 1:2247682/71‑1 (MQ=255)
tCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTa < 1:538873/71‑1 (MQ=255)
ggCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTAc < 1:807386/70‑1 (MQ=255)
gcagcTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGt < 1:3000415/69‑1 (MQ=255)
gcagcTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGt < 1:18947/69‑1 (MQ=255)
gcagcTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTc > 1:3346412/1‑70 (MQ=255)
cagcTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGc < 1:1934241/71‑1 (MQ=255)
agcTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGcc > 1:700781/1‑71 (MQ=255)
tGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtg > 1:2999134/1‑71 (MQ=255)
gCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtg < 1:2097458/70‑1 (MQ=255)
gCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtg < 1:2414615/70‑1 (MQ=255)
gCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtg < 1:3796678/70‑1 (MQ=255)
aTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAaca < 1:883089/65‑1 (MQ=255)
aTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGa > 1:2486036/1‑71 (MQ=255)
aTCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGa < 1:2555496/71‑1 (MQ=255)
cAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGcc < 1:1470115/71‑1 (MQ=255)
gTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAg < 1:946538/71‑1 (MQ=255)
gTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAg < 1:131075/71‑1 (MQ=255)
ttttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTg < 1:116231/63‑1 (MQ=255)
tttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGt > 1:3685210/1‑71 (MQ=255)
ttCCAGCAGGTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGtt > 1:1840567/1‑71 (MQ=255)
ggTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgccg < 1:3067537/71‑1 (MQ=255)
ggTCATAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTAccgccg < 1:32732/71‑1 (MQ=255)
cATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtgtg > 1:2209547/1‑40 (MQ=255)
cATAAATAGGCTGTAACGCCATTTTACTGTCGCCCAtgt > 1:3225368/1‑39 (MQ=255)
aTAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGc > 1:2736154/1‑70 (MQ=255)
aTAAATAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGc > 1:2461929/1‑70 (MQ=255)
gacaGGCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAAc < 1:3432970/68‑1 (MQ=255)
gacaGGCTGTAACGCCTTTTTGCTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAAc < 1:2932457/68‑1 (MQ=255)
aaTAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAAc > 1:2558964/1‑71 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGc < 1:207976/65‑1 (MQ=255)
tAGGCTGTAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGc < 1:3207145/65‑1 (MQ=255)
tAACGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAAcgc < 1:3586822/71‑1 (MQ=255)
aaCGCCATTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAAcgcg > 1:3762063/1‑71 (MQ=255)
cGCCATTTTACTGTCGCCGATGTGGAACACGGTGACGCCAg < 1:1900422/41‑1 (MQ=38)
|
TCGGCAGCAGCTTGCTGATCGGCACATCGCAGTTTTCCAGCAGGTCATAAATAGGCTGTAACGCCTTTTTACTGTCGCCCATGTGGAACACGGTGACGCCAGGTTTACCGCCGAGCAAACCGCCAACGCG > W3110S.gb/4563524‑4563653
|
| 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
