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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
614,426 |
C→T |
18.4% |
L349L (CTC→CTT) |
entF → |
enterobactin synthase multienzyme complex component, ATP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 614,426 | 0 | C | T | 18.4%
| 110.3
/ 17.9
| 49 | L349L (CTC→CTT) | entF | enterobactin synthase multienzyme complex component, ATP‑dependent |
| Reads supporting (aligned to +/- strand): ref base C (8/32); new base T (4/5); total (12/37) |
| Fisher's exact test for biased strand distribution p-value = 1.95e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01 |
CGAACAAATTGTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTGATGTT > W3110S.gb/614363‑614468
|
cGAACAAATTGTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAatat > 1:2075582/1‑69 (MQ=255)
cGAACAAATTGTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATc > 1:872230/1‑70 (MQ=255)
cGAACAAATTGTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATc > 1:734012/1‑70 (MQ=255)
cGAACAAATTGTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATc > 1:744667/1‑70 (MQ=255)
cGAACAAATTGTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATc > 1:2777258/1‑70 (MQ=255)
gTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:2745327/70‑1 (MQ=255)
gTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:202643/70‑1 (MQ=255)
gTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:1940795/70‑1 (MQ=255)
gTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:1973893/70‑1 (MQ=255)
tCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCTATATCAAGGTATTTGAt < 1:311384/71‑1 (MQ=255)
tCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGAt < 1:44298/71‑1 (MQ=255)
tCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGAt < 1:408721/71‑1 (MQ=255)
tCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGAt < 1:710425/71‑1 (MQ=255)
tCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGAt < 1:1747505/71‑1 (MQ=255)
tCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGAt < 1:2938390/71‑1 (MQ=255)
tCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGAt < 1:3011562/71‑1 (MQ=255)
gttaCAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAATGTATTTGATTAc < 1:1032527/68‑1 (MQ=255)
gTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTAc < 1:2968910/71‑1 (MQ=255)
gTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTAc < 1:3093148/71‑1 (MQ=255)
gTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTAc < 1:595830/71‑1 (MQ=255)
gTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTAc < 1:2612984/71‑1 (MQ=255)
gTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTAc < 1:587405/71‑1 (MQ=255)
gTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTAc < 1:786894/71‑1 (MQ=255)
gTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTAc < 1:1433462/71‑1 (MQ=255)
gTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTAc < 1:805947/71‑1 (MQ=255)
ggCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGa > 1:3240646/1‑70 (MQ=255)
ggCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:55144/71‑1 (MQ=255)
ggCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:1953980/71‑1 (MQ=255)
ggCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:1365408/71‑1 (MQ=255)
ggCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:3241096/71‑1 (MQ=255)
gCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:2376555/70‑1 (MQ=255)
gCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:2937022/70‑1 (MQ=255)
gCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:95245/70‑1 (MQ=255)
gTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:1132444/45‑1 (MQ=255)
gTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:408708/45‑1 (MQ=255)
gTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:2745647/45‑1 (MQ=255)
gTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:1236809/45‑1 (MQ=255)
gTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTGATGtt > 1:1868830/1‑71 (MQ=255)
gTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTGATGtt > 1:1245440/1‑71 (MQ=255)
gTGATGAACCGCCGTTTGGTCCGGTACTCAATATCAAGGTATTTg < 1:2263859/45‑1 (MQ=255)
tttGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:3034972/52‑1 (MQ=255)
tttGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:2718936/52‑1 (MQ=255)
tttGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:2454431/52‑1 (MQ=255)
tttGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:1161596/52‑1 (MQ=255)
tttGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTg < 1:978696/52‑1 (MQ=255)
tGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTGAt > 1:2669616/1‑52 (MQ=255)
tGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTGAt > 1:2244156/1‑52 (MQ=255)
tGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTGAt > 1:2009007/1‑52 (MQ=255)
tGGTCCGGTACTTAATATCAAGGTATTTGATTACCAACTGGATATTCCTGAt > 1:1634927/1‑52 (MQ=255)
|
CGAACAAATTGTCCGTGACAGCGGGCGAGCGGCAGGTGATGAACCGCTGTTTGGTCCGGTACTCAATATCAAGGTATTTGATTACCAACTGGATATTCCTGATGTT > W3110S.gb/614363‑614468
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
