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 I1 R2
|
328 |
63.0 |
4687567 |
98.0% |
4593815 |
65.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,101,111 |
G→A |
S272L (TCG→TTG) |
csgG ← |
outer membrane lipoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,101,111 | 0 | G | A | 100.0%
| 116.6
/ NA
| 39 | S272L (TCG→TTG) | csgG | outer membrane lipoprotein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (10/29); total (10/29) |
CGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCAAATCCCACAGAC > W3110S.gb/1101045‑1101177
|
cGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACa < 1:3656387/70‑1 (MQ=255)
aCAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCgg < 1:1235554/71‑1 (MQ=255)
aCAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCgg < 1:2221393/71‑1 (MQ=255)
aGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTa < 1:565554/71‑1 (MQ=255)
gTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACa < 1:2747273/60‑1 (MQ=255)
gTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTAt < 1:1684267/71‑1 (MQ=255)
aaaTGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTAttt > 1:571700/1‑70 (MQ=255)
tGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACata > 1:520507/1‑56 (MQ=255)
ccGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCgg < 1:2216309/60‑1 (MQ=255)
ccGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAg < 1:1493727/71‑1 (MQ=255)
gatgatAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAAt < 1:672966/71‑1 (MQ=255)
tgatAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCgg < 1:2001979/55‑1 (MQ=255)
tgatAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGt < 1:2920575/71‑1 (MQ=255)
tgatAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGt < 1:3859757/71‑1 (MQ=255)
tAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTAttt < 1:4267581/57‑1 (MQ=255)
tAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTAttt < 1:1353177/57‑1 (MQ=255)
tAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCAt < 1:2220065/71‑1 (MQ=255)
tAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCAt < 1:3715873/71‑1 (MQ=255)
aTTCCGGCTTTTTTATCTGTCAGGTTTCCGGTGGAACCAACATATGTCGGTATTTCACCAg < 1:3577586/61‑1 (MQ=255)
ccGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTAt > 1:3009788/1‑50 (MQ=255)
gCTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGt < 1:3987191/71‑1 (MQ=255)
cTTTTTTATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAg < 1:4448585/54‑1 (MQ=255)
ttttttATCTGTCAGGATTCCGGTTGAACCAACATATGGCGGTATTTCACCAg < 1:2726192/53‑1 (MQ=39)
tttttATCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGaa > 1:926047/1‑54 (MQ=255)
ttATCTGTCAGGATTCCGGTGGAACCAACATATGGCGCTATTTCACCAGAATGTCATTCTGCCGTTCTGCt > 1:569551/1‑71 (MQ=255)
tCTGTCAGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCatt < 1:1999415/70‑1 (MQ=255)
aGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTg > 1:3568613/1‑70 (MQ=255)
aGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTg > 1:4468016/1‑70 (MQ=255)
aGGATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTg > 1:1160957/1‑70 (MQ=255)
ggATTCCGGTGGAACCAACATATTGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCa < 1:2874916/71‑1 (MQ=255)
ggATTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCa < 1:2461501/71‑1 (MQ=255)
aTTCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCaaa > 1:4535104/1‑71 (MQ=255)
ttCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGt < 1:4217345/41‑1 (MQ=255)
ttCCGGTGGAACCAACATATGGCGGTATTTCACCAGAATGt < 1:4313196/41‑1 (MQ=255)
ccGGTGGAACCAACATATGGCGGTATTTCACCAGAATGTCAt > 1:343071/1‑42 (MQ=255)
gTGGAACCAACATATGGCGGTATTTCACCAGAATGTCa < 1:1560350/38‑1 (MQ=255)
tGGAACCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCa < 1:2224550/62‑1 (MQ=255)
ggAACCAACATATGGCGGTATTTCACCAGAATGTCAt < 1:3489907/37‑1 (MQ=255)
aaCCAACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCAAATCCCACAGAc < 1:547276/71‑1 (MQ=255)
|
CGCTTAAACAGTAAAATGCCGGATGATAATTCCGGCTTTTTTATCTGTCAGGATTCCGGTGGAACCGACATATGGCGGTATTTCACCAGAATGTCATTCTGCCGTTCTGCTTTATTTTGCAAATCCCACAGAC > W3110S.gb/1101045‑1101177
|
| 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
