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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,088,530 |
T→C |
34.7% |
N296S (AAC→AGC) |
yhaJ ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,088,530 | 0 | T | C | 34.7%
| 29.3
/ 23.8
| 46 | N296S (AAC→AGC) | yhaJ | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base T (13/17); new base C (5/11); total (18/28) |
| Fisher's exact test for biased strand distribution p-value = 5.33e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.27e-01 |
TAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAG > minE/2088467‑2088595
|
tAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTaaaa > 1:217753/1‑69 (MQ=255)
tAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTaaaa > 1:540606/1‑69 (MQ=255)
tAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTaaaa > 1:2029723/1‑69 (MQ=255)
tAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTaaaa > 1:503209/1‑69 (MQ=255)
tAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTaaaa > 1:1603090/1‑69 (MQ=255)
tAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTaaaa > 1:1755699/1‑69 (MQ=255)
tAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTaaaa > 1:1732910/1‑69 (MQ=255)
ttGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGaa > 1:3188100/1‑68 (MQ=255)
ttGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAAt > 1:1416312/1‑69 (MQ=255)
ttGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAAt > 1:1835889/1‑69 (MQ=255)
ttGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAAt > 1:1726482/1‑69 (MQ=255)
tCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGacac < 1:667540/69‑1 (MQ=255)
tCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGacac < 1:1717713/69‑1 (MQ=255)
cccTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAg < 1:462871/68‑1 (MQ=255)
cccTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAg < 1:31946/68‑1 (MQ=255)
cccTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAg < 1:2444937/68‑1 (MQ=255)
cccTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAg < 1:2613862/68‑1 (MQ=255)
aaCAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTc < 1:1406345/68‑1 (MQ=255)
aaCAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTc < 1:2240388/68‑1 (MQ=255)
ataataAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCa < 1:2677064/69‑1 (MQ=255)
ataataAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTCCCCCCa < 1:3285322/69‑1 (MQ=255)
taataaATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:2204017/69‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:469123/64‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:3260228/64‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:549974/64‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:235389/64‑1 (MQ=255)
aataTTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:1947124/64‑1 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:2757861/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:1382427/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:503778/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:1484292/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:1485221/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:1699453/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:454171/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:2134144/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:3088635/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGcc < 1:30429/52‑2 (MQ=255)
ttattTTCCGCTAAAAAGTTTGGGAATTTCCC‑CAGACACCAGGATTTCGcc < 1:1184250/51‑2 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTcc > 1:658538/1‑54 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTCCCCCATACTGTCacga > 1:2307818/1‑69 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTCCCCCATACTGTCacga > 1:2882405/1‑69 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTCCCCCATACTGTCacga > 1:2811477/1‑69 (MQ=255)
tattTTCCGCTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCCTCCCCCATACTGTCacga > 1:1046123/1‑69 (MQ=255)
ttCCGTTAAAAAGTTTGGGAATTTCCCGCAGCCACCAGGATTTCGCTTCCCCCATACTGTCACGACGcc > 1:2954089/1‑69 (MQ=255)
ttCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGcc > 1:2221668/1‑69 (MQ=255)
cGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAg < 1:3155856/68‑1 (MQ=255)
ttAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCAt < 1:128825/50‑1 (MQ=255)
|
TAATCTTAGAATTGGGGCGATATTTCGCCCCTTTTTATTAACAATAATAAATATTATTTTCCGTTAAAAAGTTTGGGAATTTCCCGCAGACACCAGGATTTCGCTTCCCCCATACTGTCACGACGCCAG > minE/2088467‑2088595
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
