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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,990,234 |
A→G |
50.0% |
L76L (TTA→TTG) |
mutY → |
adenine DNA glycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,990,234 | 0 | A | G | 50.0%
| ‑5.1
/ 63.9
| 46 | L76L (TTA→TTG) | mutY | adenine DNA glycosylase |
| Reads supporting (aligned to +/- strand): ref base A (7/16); new base G (12/11); total (19/27) |
| Fisher's exact test for biased strand distribution p-value = 2.31e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01 |
CTTTATGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGCGACCTTA > minE/1990168‑1990303
|
cTTTATGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGa < 1:1760311/71‑1 (MQ=255)
ttATGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATg < 1:3740734/67‑1 (MQ=255)
ggCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGAc < 1:3330777/66‑1 (MQ=255)
gcgcgcTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCt < 1:3900948/71‑1 (MQ=255)
cgcgcTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCtt < 1:426282/71‑1 (MQ=255)
cgcgcTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCt < 1:1276412/70‑1 (MQ=255)
gcgcTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTg < 1:2786986/71‑1 (MQ=255)
gcgcTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTg > 1:641292/1‑71 (MQ=255)
cccGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTa < 1:1745030/69‑1 (MQ=255)
cccGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTa < 1:1990219/69‑1 (MQ=255)
cccGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTa < 1:3600130/69‑1 (MQ=255)
ccGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTAtt < 1:69435/70‑1 (MQ=255)
ccGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTAtt < 1:456119/70‑1 (MQ=255)
ccGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTAtt < 1:99599/70‑1 (MQ=255)
cGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTAc < 1:1319700/71‑1 (MQ=255)
cGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTAc < 1:3186155/71‑1 (MQ=255)
cGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTAc < 1:3181962/71‑1 (MQ=255)
cGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTAc > 1:2362965/1‑71 (MQ=255)
aCGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGc > 1:2627399/1‑71 (MQ=255)
cGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTa > 1:3006307/1‑67 (MQ=255)
gTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCgg > 1:3805527/1‑53 (MQ=255)
tGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCcgc < 1:811218/71‑1 (MQ=255)
tGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGAcc < 1:3219363/50‑1 (MQ=255)
aCCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCcgcgc > 1:2726351/1‑71 (MQ=255)
aCCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCcgcgc < 1:409506/71‑1 (MQ=255)
ccGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCcgcgc < 1:2098411/70‑1 (MQ=255)
ccGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCg > 1:557625/1‑48 (MQ=255)
cGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTAt < 1:2065777/58‑1 (MQ=255)
cGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCcgcgcgc > 1:3211274/1‑71 (MQ=255)
aTCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGGTAtt > 1:3219933/1‑57 (MQ=255)
aTCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCt < 1:887654/49‑1 (MQ=255)
cGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTAt > 1:732387/1‑52 (MQ=255)
gCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCt > 1:287271/1‑71 (MQ=255)
cgccgcTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATaaa < 1:1933146/71‑1 (MQ=255)
gccgcTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAg < 1:1165244/71‑1 (MQ=255)
cTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCgg > 1:3542709/1‑70 (MQ=255)
tCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGca > 1:464942/1‑71 (MQ=255)
gacgaAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATc < 1:2484625/55‑1 (MQ=255)
gaAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCacaac > 1:3703858/1‑70 (MQ=255)
gaAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCcgcgcgcg < 1:609633/47‑1 (MQ=255)
aGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAg > 1:2090507/1‑71 (MQ=255)
aGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAg > 1:725599/1‑71 (MQ=255)
aGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAg < 1:908587/71‑1 (MQ=255)
tctcCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCTCGCAATCTGCATAAAGCGGCACAACAAGTgg > 1:1294529/1‑71 (MQ=255)
tcCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGc > 1:3849105/1‑70 (MQ=255)
cACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGCGAc > 1:1157257/1‑71 (MQ=255)
aTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGCGACCTTa > 1:1891446/1‑70 (MQ=255)
|
CTTTATGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGCGACCTTA > minE/1990168‑1990303
|
| 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
