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 |
2,860,110 |
G→A |
V9I (GTC→ATC) |
ygbJ → |
predicted dehydrogenase, with NAD(P)‑binding Rossmann‑fold domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,860,110 | 0 | G | A | 76.4%
| 102.6
/ 32.2
| 55 | V9I (GTC→ATC) | ygbJ | predicted dehydrogenase, with NAD(P)‑binding Rossmann‑fold domain |
| Reads supporting (aligned to +/- strand): ref base G (5/8); new base A (3/39); total (8/47) |
| Fisher's exact test for biased strand distribution p-value = 1.34e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACAATATCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAGGT > W3110S.gb/2860043‑2860172
|
acaATATCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTc < 1:958810/70‑1 (MQ=255)
acaATATCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATc < 1:984958/70‑1 (MQ=255)
acaATATCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATc < 1:2768981/70‑1 (MQ=255)
acaATATCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATc < 1:367891/70‑1 (MQ=255)
atatCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTa < 1:2424547/71‑1 (MQ=255)
tCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATc < 1:98378/70‑1 (MQ=255)
tCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATc < 1:1756478/70‑1 (MQ=255)
tCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATc < 1:373583/70‑1 (MQ=255)
atacaaaATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATc < 1:3961127/66‑1 (MQ=255)
aaacaaaATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGtt < 1:1080857/71‑1 (MQ=255)
aaTATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTa < 1:1330526/71‑1 (MQ=255)
aaTATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTa < 1:337701/71‑1 (MQ=255)
aaTATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTa < 1:2161782/71‑1 (MQ=255)
aaTATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTa < 1:2069597/71‑1 (MQ=255)
aaTATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTa < 1:2783176/71‑1 (MQ=255)
aaTATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTa < 1:4119261/71‑1 (MQ=255)
aaTATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTa < 1:767486/71‑1 (MQ=255)
aaTATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGAGCTGAGTTTCATATCGGTATCGTTGGCTTa < 1:1867761/71‑1 (MQ=255)
atatCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAg < 1:179944/71‑1 (MQ=255)
atatCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAg < 1:977983/71‑1 (MQ=255)
atatCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAg < 1:1773244/71‑1 (MQ=255)
atatCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAg < 1:872419/71‑1 (MQ=255)
atatCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAg < 1:901232/71‑1 (MQ=255)
tatCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAg < 1:3865540/70‑1 (MQ=255)
tatCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAgg < 1:1869845/71‑1 (MQ=255)
aCTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTc < 1:242936/70‑1 (MQ=255)
aCTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTc < 1:3166286/70‑1 (MQ=255)
cTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTc < 1:2835235/69‑1 (MQ=255)
aaTTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCaatggg < 1:4108481/71‑1 (MQ=255)
aaTTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCaatggg < 1:2612730/71‑1 (MQ=255)
aaTTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCaatggg < 1:1231815/71‑1 (MQ=255)
aaTTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCaatggg < 1:1450730/71‑1 (MQ=255)
aaTTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCaatggg < 1:1653206/71‑1 (MQ=255)
aTTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCgatggg < 1:1997070/70‑1 (MQ=255)
cAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCaatgggaatggg < 1:1135599/71‑1 (MQ=255)
aGGAGAGCAGATGAATACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAg < 1:2304226/53‑1 (MQ=255)
aGGAGAGCAGATGAAAACGGGATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCaatgggaatggg < 1:2706725/69‑1 (MQ=255)
gCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAGGGTCaatgggaa > 1:2976509/1‑59 (MQ=255)
gCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAGGGTCaatgggaa > 1:2256513/1‑59 (MQ=255)
gCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAGGGTCaatgggaa > 1:2086265/1‑59 (MQ=255)
gCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAGGGTCaatgggaa > 1:2574684/1‑59 (MQ=255)
gCAGATGAAAACGGGATCTGAGATTCATGTCGGTATCGTTgg > 1:3293763/1‑42 (MQ=255)
aGATGAAAACGGGATCTGAGTTTCATATCGGTATCGtt < 1:739902/38‑1 (MQ=255)
gggATCTGAGTTTCATATCGGTATCGTTGGCTTAGGGTCaatggg < 1:2599528/45‑1 (MQ=255)
aGTTTCATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAgg < 1:3807864/70‑1 (MQ=255)
aGTTTCATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAgg < 1:1736618/70‑1 (MQ=255)
aGTTTCATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAgg < 1:3346834/70‑1 (MQ=255)
aGTTTCATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAgg < 1:2942029/70‑1 (MQ=255)
aGTTTCATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAgg < 1:1436061/70‑1 (MQ=255)
aGTTTCATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAGGt < 1:1918762/71‑1 (MQ=255)
aGTTTCATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAGGt < 1:3961377/71‑1 (MQ=255)
aGTTTCATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAGGt < 1:1764156/71‑1 (MQ=255)
cATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGagcagc > 1:3191608/1‑44 (MQ=255)
cATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCAc > 1:186213/1‑46 (MQ=255)
cATATCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCAc > 1:1529374/1‑46 (MQ=255)
|
ACAATATCAAACAAAATATCACTTAAATTAACAAGGAGAGCAGATGAAAACGGGATCTGAGTTTCATGTCGGTATCGTTGGCTTAGGGTCAATGGGAATGGGAGCAGCACTGTCATATGTCCGCGCAGGT > W3110S.gb/2860043‑2860172
|
| 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
