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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,093,686 |
T→C |
100% |
V130A (GTA→GCA) |
ycdT → |
predicted diguanylate cyclase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,093,686 | 0 | T | C | 100.0%
| 182.4
/ NA
| 52 | V130A (GTA→GCA) | ycdT | predicted diguanylate cyclase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (24/28); total (24/28) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTT > W3110S.gb/1093619‑1093748
|
gtCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAtt > 1:2664628/1‑71 (MQ=255)
gtCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAtt > 1:2211600/1‑71 (MQ=255)
gtCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAtt > 1:1617037/1‑71 (MQ=255)
gtCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGCTTGTGCATATTAATATTTCTGGCAtt > 1:1969855/1‑71 (MQ=255)
aaCATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaa < 1:839434/70‑1 (MQ=255)
aCATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaa < 1:3025201/70‑1 (MQ=255)
aCATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaa < 1:1487233/70‑1 (MQ=255)
ttGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGtt < 1:2764688/71‑1 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGt > 1:336331/1‑68 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAg > 1:187878/1‑71 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAg > 1:1984523/1‑71 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAg > 1:206620/1‑71 (MQ=255)
tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAt < 1:640852/51‑1 (MQ=255)
tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTg < 1:728325/56‑1 (MQ=255)
tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTg < 1:269434/56‑1 (MQ=255)
tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTg < 1:471717/56‑1 (MQ=255)
tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTg < 1:829778/56‑1 (MQ=255)
cTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:315610/70‑1 (MQ=255)
cTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:3624665/70‑1 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGaa > 1:2364845/1‑56 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa > 1:1226059/1‑71 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:2432645/67‑1 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:674630/67‑1 (MQ=255)
tttGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:3276426/71‑1 (MQ=255)
tttGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:884552/71‑1 (MQ=255)
gAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAGAGCGCAatttat > 1:3370758/1‑71 (MQ=255)
gTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGt < 1:3651154/40‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa > 1:3121566/1‑38 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa > 1:1152233/1‑38 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa > 1:3004227/1‑38 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaaaa > 1:610844/1‑45 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaaaa > 1:2103109/1‑45 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaaaa > 1:915796/1‑45 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:400310/43‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:976333/43‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:1785747/43‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:2114877/43‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt > 1:3301893/1‑71 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt > 1:2971081/1‑71 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt > 1:1267834/1‑71 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt > 1:2218319/1‑71 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt < 1:1918249/71‑1 (MQ=255)
aaTATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATg < 1:2031913/70‑1 (MQ=255)
tatTTCTGGCATTGGTGAATAAAGTTAGTGAAAac < 1:304998/35‑1 (MQ=255)
tatTTCTGGCATTGGTGAATAAAGTTAGTGAAAac < 1:500274/35‑1 (MQ=255)
tatTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACt < 1:891467/71‑1 (MQ=255)
tatTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACt < 1:2720142/71‑1 (MQ=255)
tatTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACt < 1:1085667/71‑1 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCaa > 1:419055/1‑47 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCaa > 1:1631821/1‑47 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCaa > 1:1516229/1‑47 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACtt < 1:1932747/70‑1 (MQ=255)
|
GTCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTT > W3110S.gb/1093619‑1093748
|
| 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
