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 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
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%
| 209.2
/ NA
| 61 | V130A (GTA→GCA) | ycdT | predicted diguanylate cyclase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (42/19); total (42/19) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTT > W3110S.gb/1093619‑1093749
|
gtCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAt < 1:2067486/70‑1 (MQ=255)
tCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAtt < 1:288240/70‑1 (MQ=255)
cAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGt > 1:30090/1‑71 (MQ=255)
aaTGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGaa < 1:2417840/71‑1 (MQ=255)
ttGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGt > 1:1990085/1‑70 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGt > 1:744155/1‑59 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGt > 1:2959400/1‑59 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTa < 1:770178/70‑1 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTa < 1:1674554/70‑1 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAg > 1:346798/1‑71 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAg > 1:1342872/1‑71 (MQ=255)
cAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTa < 1:2780339/69‑1 (MQ=255)
tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGt < 1:2870289/64‑1 (MQ=255)
cTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa > 1:236973/1‑70 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGTCATTGGTGAATAAAGTTAGTGaaaa > 1:3999552/1‑71 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTa > 1:3826561/1‑64 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTa > 1:3901166/1‑64 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTa > 1:2501319/1‑64 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAgagatag > 1:3796498/1‑68 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa > 1:2331258/1‑71 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaaa > 1:28491/1‑58 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaaa > 1:1116423/1‑58 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaaa > 1:2681414/1‑58 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaaa > 1:2562876/1‑58 (MQ=255)
attTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAg > 1:1669496/1‑57 (MQ=255)
attTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa > 1:1497947/1‑67 (MQ=255)
attTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAacac > 1:2287730/1‑70 (MQ=255)
tttGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:3859195/71‑1 (MQ=255)
tttGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:3448358/71‑1 (MQ=255)
tttGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:1989572/71‑1 (MQ=255)
tCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAg > 1:2616975/1‑54 (MQ=255)
tCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAg > 1:1970386/1‑54 (MQ=255)
tCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAgc > 1:1654028/1‑71 (MQ=255)
gTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAgcgc < 1:2597595/71‑1 (MQ=255)
aTGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa < 1:3127030/53‑1 (MQ=255)
aTGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa < 1:2908234/53‑1 (MQ=255)
gTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:1850976/47‑1 (MQ=255)
gTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:1262260/47‑1 (MQ=255)
gTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:3758395/47‑1 (MQ=255)
gTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:1471254/47‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc > 1:3752892/1‑46 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc > 1:2982879/1‑46 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc > 1:443721/1‑46 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc > 1:663634/1‑46 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAg > 1:1098069/1‑48 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAg > 1:1626701/1‑48 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAg > 1:4050074/1‑48 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt > 1:2969586/1‑71 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt > 1:2893746/1‑71 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt > 1:3985157/1‑71 (MQ=255)
tAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaaaa > 1:2590691/1‑44 (MQ=255)
aaTATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc > 1:3524406/1‑44 (MQ=255)
aaTATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc > 1:1349350/1‑44 (MQ=255)
aaTATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATg < 1:3465557/70‑1 (MQ=255)
atatTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATg < 1:3163412/69‑1 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAg > 1:2488081/1‑42 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACttt > 1:2585929/1‑71 (MQ=255)
tCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttat > 1:3434583/1‑50 (MQ=255)
tCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttat > 1:2710508/1‑50 (MQ=255)
tCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttat > 1:270927/1‑50 (MQ=255)
tCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttat > 1:1171371/1‑50 (MQ=255)
|
GTCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTT > W3110S.gb/1093619‑1093749
|
| 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
