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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
608,340 |
G→A |
30.9% |
H638H (CAC→CAT) |
pflB ← |
pyruvate formate lyase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 608,340 | 0 | G | A | 30.9%
| 73.5
/ 43.1
| 62 | H638H (CAC→CAT) | pflB | pyruvate formate lyase I |
| Reads supporting (aligned to +/- strand): ref base G (26/16); new base A (7/12); total (34/28) |
| Fisher's exact test for biased strand distribution p-value = 9.72e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.07e-01 |
TTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCT > minE/608272‑608410
|
ttAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGt > 1:3836571/1‑70 (MQ=255)
ttAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTg > 1:1192396/1‑71 (MQ=255)
ttAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCCTg > 1:4201025/1‑71 (MQ=255)
tAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGt < 1:2513253/69‑1 (MQ=255)
tAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTg > 1:3385579/1‑70 (MQ=255)
cGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATc < 1:3595044/71‑1 (MQ=255)
gTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCg > 1:5471197/1‑71 (MQ=255)
tAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCg < 1:2509113/70‑1 (MQ=255)
aGCAAACGGCAGTTTAGAAACGGAAGTCAGAGAGGCTACTCCACCTTTCTGGTAACGACCGTGCATCGGGt > 1:4693906/1‑71 (MQ=255)
aaCGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGTTAGc > 1:2058665/1‑71 (MQ=255)
aCGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGTTAGcg > 1:3138578/1‑70 (MQ=255)
aCGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGTTAGcg < 1:945225/71‑2 (MQ=255)
aCGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGTTAGcg > 1:321985/1‑70 (MQ=255)
aCGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGTTAGcg > 1:2844125/1‑70 (MQ=255)
aCGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGc > 1:1711072/1‑70 (MQ=255)
ggCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGc < 1:2386775/57‑1 (MQ=255)
ggCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGc < 1:3407023/57‑1 (MQ=255)
gCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGTTAGCGccc < 1:1432672/71‑1 (MQ=255)
aGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCgg < 1:1762056/71‑1 (MQ=255)
aGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCgg < 1:3073683/71‑1 (MQ=255)
gCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGaa < 1:2120626/71‑1 (MQ=255)
cGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgc < 1:5113031/71‑1 (MQ=255)
ggAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCAccc > 1:2368787/1‑58 (MQ=255)
ggAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCAccc > 1:1922208/1‑58 (MQ=255)
gAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgcgc < 1:3688099/71‑1 (MQ=255)
aGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgcgcgc > 1:980134/1‑71 (MQ=255)
aGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgcgcgc > 1:3105067/1‑71 (MQ=255)
tCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGt < 1:5463821/45‑1 (MQ=255)
tgagGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGtt < 1:900613/41‑1 (MQ=255)
agagGCTACTGCACCTTTCTGGTCACGACCGTGCAt > 1:2995951/1‑36 (MQ=255)
agagGCTACTGCACCTTTCTGGTCACGACCGTGCAt > 1:3128837/1‑36 (MQ=255)
agagGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCac < 1:1399283/71‑1 (MQ=255)
agagGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCac < 1:2490337/71‑1 (MQ=255)
ggCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacga > 1:2161674/1‑70 (MQ=255)
gCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacgacg < 1:3342709/71‑1 (MQ=255)
cTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAg < 1:1676881/39‑1 (MQ=255)
cggCACCTTTGCGGTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCg > 1:616796/3‑71 (MQ=255)
ggCACCTTTGAGGTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCg < 1:276826/69‑1 (MQ=255)
gCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacga > 1:3639095/1‑63 (MQ=255)
gCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacga > 1:3379603/1‑63 (MQ=255)
gCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACgacgac > 1:933964/1‑67 (MQ=255)
cACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACgacgac > 1:5403555/1‑66 (MQ=255)
cACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCt > 1:5464753/1‑71 (MQ=255)
cACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCt > 1:5213759/1‑71 (MQ=255)
ccTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCttg < 1:2552236/71‑3 (MQ=255)
ttCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAg > 1:2966184/1‑52 (MQ=255)
ttCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgt > 1:4138635/1‑71 (MQ=255)
ttCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgt > 1:2646935/1‑71 (MQ=255)
tgcggTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCgt < 1:1831786/67‑1 (MQ=255)
tCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgt < 1:2347125/70‑1 (MQ=255)
cTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacga > 1:2409864/1‑55 (MQ=255)
gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgtgt < 1:502969/68‑1 (MQ=255)
gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTAc > 1:5106630/1‑71 (MQ=255)
gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTAc > 1:3947601/1‑71 (MQ=255)
gTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTAc < 1:1035538/71‑1 (MQ=255)
tCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCgta > 1:4677054/1‑65 (MQ=255)
aCGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTggg > 1:928333/1‑61 (MQ=255)
aCGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTAccgg > 1:4037640/1‑69 (MQ=255)
aCGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTAccg < 1:2079948/70‑2 (MQ=255)
gACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGtt < 1:3841163/71‑1 (MQ=255)
gACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGtt < 1:1515024/71‑1 (MQ=255)
aCCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGttt < 1:4754005/71‑1 (MQ=255)
gTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCt < 1:2869956/71‑1 (MQ=255)
|
TTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCT > minE/608272‑608410
|
| 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
