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 |
2,918,751 |
A→G |
17.1% |
D315D (GAT→GAC) |
argI ← |
ornithine carbamoyltransferase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,918,751 | 0 | A | G | 17.1%
| 158.9
/ 24.9
| 70 | D315D (GAT→GAC) | argI | ornithine carbamoyltransferase 1 |
| Reads supporting (aligned to +/- strand): ref base A (28/30); new base G (7/5); total (35/35) |
| Fisher's exact test for biased strand distribution p-value = 7.52e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
AGCAATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGTAGGCCAAATT > minE/2918686‑2918821
|
aGCAATTATTTACTGAGTGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCaa > 1:2296540/1‑70 (MQ=255)
aGCAATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCaa > 1:368211/1‑70 (MQ=255)
aGCAATTATTTACTGAGCGTCGAGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCaa > 1:1151857/1‑70 (MQ=255)
gCAATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCaaaa < 1:1594911/71‑1 (MQ=255)
attattTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACa < 1:2201761/71‑1 (MQ=255)
attattTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACa < 1:1452984/71‑1 (MQ=255)
attTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAAt > 1:1688317/1‑70 (MQ=255)
tACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCt < 1:3499375/70‑1 (MQ=255)
tACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTg > 1:1084860/1‑71 (MQ=255)
tACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTg > 1:3032873/1‑71 (MQ=255)
tACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTg > 1:795772/1‑71 (MQ=255)
aCTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTg < 1:609998/70‑1 (MQ=255)
tGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCaa < 1:2005096/57‑1 (MQ=255)
tGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTggcg > 1:1903999/1‑71 (MQ=255)
caaGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTcgcc > 1:527391/3‑70 (MQ=255)
aaGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTcgccg > 1:1215440/2‑69 (MQ=255)
aGCGTTGCCATCATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTcg < 1:1579608/54‑2 (MQ=255)
aGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTggcgg > 1:1836579/1‑70 (MQ=255)
aGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTggcgg < 1:3623585/70‑1 (MQ=255)
tCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGAt < 1:2444571/71‑1 (MQ=255)
gcgACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTc > 1:1460201/1‑71 (MQ=255)
cgACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTc > 1:1284918/1‑70 (MQ=255)
aCCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCg > 1:3350507/1‑69 (MQ=255)
tcATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGAt > 1:2305279/2‑52 (MQ=255)
cATCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTcgccgccg > 1:511659/1‑60 (MQ=255)
aTCACCGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCaaaca < 1:2276540/70‑3 (MQ=255)
tCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGa < 1:2097934/66‑1 (MQ=255)
ccGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCtca < 1:538164/71‑1 (MQ=255)
cGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGa > 1:1843292/1‑65 (MQ=255)
cGCCTTAATCGTATGCATCCGGTTTTCCGCCTGGTcg < 1:3110759/37‑2 (MQ=16)
gCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCtcat > 1:2259504/1‑70 (MQ=255)
gCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCtcat > 1:2800896/1‑70 (MQ=255)
ttGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAg > 1:2546262/1‑70 (MQ=255)
tGATAGTATGCATACGGTTTTCCGCCTGATCAAAAAc < 1:1141652/37‑1 (MQ=255)
tGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCACATCAGt > 1:2475180/1‑70 (MQ=255)
tGATAGTATGCATACGGTTTTCCACCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGt < 1:1433903/70‑1 (MQ=255)
gTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTc < 1:2289895/71‑1 (MQ=255)
tATGCATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTcc < 1:3665075/71‑1 (MQ=255)
tATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTc > 1:2370965/1‑70 (MQ=255)
tGCATACGGTTTTCCGCCTGATCAAAAACAATGCTggcg < 1:2991960/39‑1 (MQ=255)
tGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCAt < 1:2537598/71‑1 (MQ=255)
gCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGaa > 1:3323714/1‑49 (MQ=255)
gCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATa > 1:2586964/1‑71 (MQ=255)
cATCCGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCAtcc > 1:3815328/1‑69 (MQ=255)
cATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGa < 1:231261/47‑1 (MQ=255)
tACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGAtt < 1:519165/42‑1 (MQ=255)
tACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATAc < 1:3482601/69‑1 (MQ=255)
ccGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCAcct > 1:456762/2‑60 (MQ=255)
ccGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCCGc > 1:1610999/2‑71 (MQ=255)
aCGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGa > 1:627506/1‑47 (MQ=255)
aCGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGc > 1:3433599/1‑71 (MQ=255)
cGGTTTTCCGCCTGGTCGAACACGATGCTCGCCGCCGACTCAAACACCTCGTCCGTCACCTCCATCCCGcc < 1:2703955/71‑1 (MQ=255)
cGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGAcc > 1:1417919/1‑48 (MQ=255)
cGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCtcatca > 1:880587/1‑54 (MQ=255)
cGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATa > 1:483246/1‑66 (MQ=255)
cGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGcc < 1:985325/71‑1 (MQ=255)
ggTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCa > 1:1931823/1‑71 (MQ=255)
gTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCAt < 1:2494147/71‑1 (MQ=255)
ttttCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATg < 1:3403002/71‑1 (MQ=255)
ttCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGaa > 1:1991256/1‑39 (MQ=255)
ttCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATg > 1:883096/1‑69 (MQ=255)
ttCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGt < 1:3720328/70‑1 (MQ=255)
ttCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGt < 1:3396146/70‑1 (MQ=255)
tCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGTa < 1:3683894/70‑1 (MQ=255)
cGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTc < 1:2049051/54‑1 (MQ=255)
cGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTc < 1:860264/54‑1 (MQ=255)
ccTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGTAGGc < 1:3160204/69‑1 (MQ=255)
ccTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGTAGGCCa < 1:3791017/71‑1 (MQ=255)
ccTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGTAGGCCa < 1:3643457/71‑1 (MQ=255)
tGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACtt < 1:3791737/49‑1 (MQ=255)
aTCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGTAGGCCaaa < 1:3074562/69‑1 (MQ=255)
aTCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGTAGGCCAAAtt > 1:3867180/1‑71 (MQ=255)
|
AGCAATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCGGCAGATTCGAAGACCTCATCAGTGACTTCCATACCGCCATGTAGGCCAAATT > minE/2918686‑2918821
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
