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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,529,224 |
A→G |
37.9% |
G66G (GGT→GGC) |
yfcL ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,529,224 | 0 | A | G | 37.9%
| 24.2
/ 29.2
| 50 | G66G (GGT→GGC) | yfcL | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (12/19); new base G (12/7); total (24/26) |
| Fisher's exact test for biased strand distribution p-value = 1.45e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTGCTGAAACAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTATGCACCGCCTGAGCGGAGTG > minE/1529157‑1529280
|
ccTGCTGAAACAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCAc < 1:2449057/69‑1 (MQ=255)
ctgctgAAACAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCAcc < 1:390189/69‑1 (MQ=255)
aCAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCtt > 1:2991741/1‑69 (MQ=255)
aCAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCtt > 1:2307704/1‑69 (MQ=255)
aCAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCtt > 1:1816981/1‑69 (MQ=255)
aCAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCtt > 1:1724266/1‑69 (MQ=255)
aCAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACAAAt > 1:2147162/1‑64 (MQ=255)
aCAGGTGTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCtt > 1:1128/1‑69 (MQ=255)
tttCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCa > 1:2414813/1‑69 (MQ=255)
ccACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGAc < 1:1685874/68‑1 (MQ=255)
ccACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGAc < 1:873819/68‑1 (MQ=255)
ccACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGAc < 1:1054599/68‑1 (MQ=255)
ccACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGAc < 1:1895979/68‑1 (MQ=255)
atatCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTg > 1:375978/1‑68 (MQ=255)
atatCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTg > 1:693037/1‑68 (MQ=255)
atatCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTg > 1:243717/1‑68 (MQ=255)
tatCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCAcc < 1:966844/46‑1 (MQ=255)
tatCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCAcc < 1:9073/46‑1 (MQ=255)
tatCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCAcc < 1:3323239/46‑1 (MQ=255)
tatCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCAcc < 1:122858/46‑1 (MQ=255)
tatCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCAcc < 1:2153958/46‑1 (MQ=255)
tatCGGTCACCAGCCCCTGGTCACGCGGCGACAATTCACCAGCAcc < 1:1476116/46‑1 (MQ=255)
tatCGGTCACCAGCACCTGGTCACGCGGCGACAATTCACCAGCAcc < 1:3359985/46‑1 (MQ=255)
aGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTa > 1:1717842/1‑69 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATgg > 1:3022572/1‑39 (MQ=37)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:1898416/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:2197430/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:1987156/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:2040647/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:3301481/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:1141408/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:2831688/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:20817/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:2118921/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:1744965/1‑68 (MQ=255)
gcgcCTGGTCACGCGGTGACAATTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTa > 1:1619735/1‑68 (MQ=255)
cgcCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTATg < 1:2778017/69‑1 (MQ=255)
cgcCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTATg < 1:3346363/69‑1 (MQ=255)
gcCTGGTCACGCGGCGACAATTCACCAGCACCATTGGCTTTTTCCAGAGTCTGGCTAACGGTCGTATg < 1:618649/68‑1 (MQ=255)
tGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTATGCAcc < 1:534212/69‑1 (MQ=255)
ggTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTATGCAcc < 1:2724270/68‑1 (MQ=255)
cACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTATGCACCGc > 1:2519614/1‑67 (MQ=255)
gcgACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTATGCACCGCCTGAGCgg < 1:874159/69‑1 (MQ=255)
aaTTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTATGTACCGCCTGAGCGGAGTg < 1:624053/68‑1 (MQ=255)
aaTTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTATGTACCGCCTGAGCGGAGTg < 1:483136/68‑1 (MQ=255)
aaTTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTATGTACCGCCTGAGCGGAGTg < 1:821134/68‑1 (MQ=255)
aaTTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTATGTACCGCCTGAGCGGAGTg < 1:435577/68‑1 (MQ=255)
aaTTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTATGTACCGCCTGAGCGGAGTg < 1:3431122/68‑1 (MQ=255)
aaTTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTATGTACCGCCTGAGCGGAGTg < 1:1179411/68‑1 (MQ=255)
aaTTCACCCGCGCCAATGGCTTTTTCCAGACTCTGGCTAACGGTTGTATGTACCGCCTGAGCGGAGTg < 1:977265/68‑1 (MQ=255)
|
CCTGCTGAAACAGGTTTTCCCACATATCGGTCACCAGCGCCTGGTCACGCGGCGACAATTCACCAGCACCAATGGCTTTTTCCAGACTCTGGCTAACGGTCGTATGCACCGCCTGAGCGGAGTG > minE/1529157‑1529280
|
| 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
