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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,700,325 |
C→A |
36.1% |
G190G (GGG→GGT) |
malI ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,700,325 | 0 | C | A | 36.1%
| 82.3
/ 35.4
| 47 | G190G (GGG→GGT) | malI | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base C (19/11); new base A (5/12); total (24/23) |
| Fisher's exact test for biased strand distribution p-value = 3.55e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAATTTTAGTAGAGTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACTGTGCAG > W3110S.gb/1700262‑1700389
|
aaaTTTTAGTAGAGTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGACCTCcca < 1:2161496/71‑1 (MQ=255)
aTTTTAGTAGAGTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGTAACTTTGACCTCccagc < 1:1924763/71‑1 (MQ=255)
aTTTTAGTAGAGTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGACCTCccagc > 1:4759244/1‑71 (MQ=255)
tttAGTAGAGTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCccagc > 1:124513/1‑69 (MQ=255)
tttAGTAGAGTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCccagc > 1:884424/1‑69 (MQ=255)
ttAGTAGAGTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGACCTCccagccag > 1:1617899/1‑71 (MQ=255)
gTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCg > 1:2296360/1‑71 (MQ=255)
gCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCt > 1:821000/1‑70 (MQ=255)
gCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCt < 1:3239029/70‑1 (MQ=255)
gCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCt < 1:4660064/70‑1 (MQ=255)
cacaATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTg < 1:2422154/70‑1 (MQ=255)
cacaATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTg < 1:2687117/70‑1 (MQ=255)
cacaATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTg < 1:4688207/70‑1 (MQ=255)
cccAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGc < 1:1692614/71‑1 (MQ=255)
cccAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGc < 1:1597361/71‑1 (MQ=255)
cccAACCCGTTCTGCACGGGTTAATGAGGAACTTTGACCTCCCAGCCAGGCg < 1:4380049/52‑1 (MQ=255)
ccAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGc < 1:1258472/70‑1 (MQ=255)
gTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGaa > 1:357835/1‑66 (MQ=255)
cTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGc > 1:2422345/1‑71 (MQ=255)
cTGCACGGGTTAATGAGGAACTTTGACCTCCCAGCCAGGCGATCCGCTGa > 1:2157318/1‑50 (MQ=255)
cACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTcc > 1:3878503/1‑71 (MQ=255)
aCGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGa > 1:3864486/1‑46 (MQ=255)
aCGGGTTAATGAGGAACTTTGCCATCCCAGCCAGGCGATCCGCTGa > 1:1631924/1‑46 (MQ=255)
cGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGt > 1:3208363/1‑71 (MQ=255)
gggTTAATGAGGAACTTTGACCTCCCAGCCAGGCGATCCGCt < 1:2693040/42‑1 (MQ=255)
gggTTAATGAGGAACTTTGACCTCCCAGCCAGGCGATCCGCt < 1:269423/42‑1 (MQ=255)
gggTTAATGAGGAACTTTGACCTCCCAGCCAGGCGATCCGCt < 1:1892133/42‑1 (MQ=255)
tAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTcaac > 1:2323163/1‑70 (MQ=255)
tAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTcaac > 1:2300354/1‑70 (MQ=255)
ggAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATgag > 1:1624719/1‑51 (MQ=255)
ggAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATgag > 1:3349239/1‑51 (MQ=255)
ggAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATgag > 1:4260119/1‑51 (MQ=255)
gAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACtgtg < 1:624815/70‑1 (MQ=255)
gAACTTTGCACTCCCAGCCAGGCGATCCGCTGATGCCCATTGAGAATGAGATGCTCCGTCAACAACtgtg > 1:1693878/1‑70 (MQ=255)
gAACTTTGACCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACtgtg > 1:243202/1‑70 (MQ=255)
aaCTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACTGTGCa < 1:2588976/71‑1 (MQ=255)
aaCTTTGACCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACTGTGCa < 1:1382039/71‑1 (MQ=255)
aCTTTGCCCTCCCAGCCAGGCGATCCGCTGATGccc > 1:3706162/1‑36 (MQ=255)
aCTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCa > 1:2224141/1‑37 (MQ=255)
aCTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCa > 1:2324253/1‑37 (MQ=255)
aCTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACTGTGCAg < 1:4476199/71‑1 (MQ=255)
aCTTTGACCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACTGTGCAg < 1:2188019/71‑1 (MQ=255)
aCTTTGACCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACTGTGCAg < 1:4853523/71‑1 (MQ=255)
aCTTTGACCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACTGTGCAg < 1:2680291/71‑1 (MQ=255)
cTTTGACCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTc < 1:4619502/57‑1 (MQ=255)
cTTTGACCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTc < 1:348747/57‑1 (MQ=255)
ttGACCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTcaa > 1:387060/1‑57 (MQ=255)
|
AAATTTTAGTAGAGTTGCACAATAGCCCCCAACCCGTTCTGCACGGGTTAATGAGGAACTTTGCCCTCCCAGCCAGGCGATCCGCTGATGCCCATTGCGAATGAGATGCTCCGTCAACAACTGTGCAG > W3110S.gb/1700262‑1700389
|
| 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
