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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,742,822 |
A→G |
80.4% |
S400G (AGC→GGC) |
ydhC → |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,742,822 | 0 | A | G | 80.4%
| 101.7
/ 18.7
| 46 | S400G (AGC→GGC) | ydhC | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (2/7); new base G (22/15); total (24/22) |
| Fisher's exact test for biased strand distribution p-value = 6.60e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.83e-01 |
GGTTACATGATGCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATAGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACAAAATTTTGTTGTATGATT > W3110S.gb/1742756‑1742889
|
ggTTACATGATGCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCg < 1:568921/70‑1 (MQ=255)
ggTTACATGATGCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCg < 1:3594476/70‑1 (MQ=255)
aCATGATGCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATca > 1:2587974/1‑71 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCacac > 1:8240/1‑70 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACt > 1:3285453/1‑71 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACt > 1:705399/1‑71 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACt > 1:131201/1‑71 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACt > 1:3050855/1‑71 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACt > 1:3326926/1‑71 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACt > 1:3356955/1‑71 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACt > 1:2785675/1‑71 (MQ=255)
gatgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACt > 1:43863/1‑71 (MQ=255)
atgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTg < 1:1088075/71‑1 (MQ=255)
atgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTg < 1:441103/71‑1 (MQ=255)
atgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTg < 1:1720987/71‑1 (MQ=255)
tgCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGa > 1:3397357/1‑71 (MQ=255)
aaCGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCg < 1:2279124/57‑1 (MQ=255)
aCGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCta < 1:1751327/71‑1 (MQ=255)
aCGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCta < 1:3077199/71‑1 (MQ=255)
aCGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCta < 1:3167943/71‑1 (MQ=255)
aCGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATAGCGAATCACACTGATCta < 1:2166266/71‑1 (MQ=255)
aCGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATAGCGAATCACACTGATCta < 1:1759818/71‑1 (MQ=255)
aCGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATAGCGAATCACACTGATCta < 1:3303875/71‑1 (MQ=255)
tgAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGa < 1:2440800/71‑1 (MQ=255)
agTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGAtatact < 1:3083495/71‑1 (MQ=255)
agTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGAtatact < 1:1147767/71‑1 (MQ=255)
ggCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGAtatacttata > 1:2116797/1‑71 (MQ=255)
ggCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGAtatacttata > 1:3508917/1‑71 (MQ=255)
gCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGAtatacttata < 1:3518528/70‑1 (MQ=255)
tCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGAtatactta > 1:945330/1‑58 (MQ=255)
tCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGAtatactta > 1:3640915/1‑58 (MQ=255)
tCATGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGAtatactta > 1:333703/1‑58 (MQ=255)
aTGGCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTaa > 1:1074312/1‑71 (MQ=255)
gCAATGCCGAAGTCGCTCATGGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACaa < 1:701865/71‑1 (MQ=255)
ccGAAGTCGCTCATGGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACAAAAttt > 1:3471985/1‑70 (MQ=255)
ccGAAGTCGCTCATAGCGAATCACACTGATCTATATCGa > 1:3451877/1‑39 (MQ=255)
ccGAAGTCGCTCATAGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACAAAAttt > 1:1800532/1‑70 (MQ=255)
aGTCGCTCATGGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACAAAATTttgttg < 1:230836/71‑1 (MQ=255)
cGCTCATGGCGAATCACACTGATCTATATCGAtata > 1:3515330/1‑36 (MQ=255)
gCTCATGGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACAAAATTTTGTTGTAt > 1:2384990/1‑70 (MQ=255)
gCTCATGGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACAAAATTTTGTTGTAt > 1:1164981/1‑70 (MQ=255)
cATGGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACAAAATTTTGTTGTATGAtt > 1:820623/1‑71 (MQ=255)
aTAGCGAATCACACTGATCTATATCGAtatacttatac < 1:2772556/38‑1 (MQ=255)
aTAGCGAATCACACTGATCTATATCGAtatacttatac < 1:2925887/38‑1 (MQ=255)
aTAGCGAATCACACTGATCTATATCGAtatacttatac < 1:2961790/38‑1 (MQ=255)
aTAGCGAATCACACTGATCTATATCGAtatacttatac < 1:3077370/38‑1 (MQ=255)
|
GGTTACATGATGCAACGTTGTGAAGAAGTTGGCTGCCAGAATCATGGCAATGCCGAAGTCGCTCATAGCGAATCACACTGATCTATATCGATATACTTATACTTAGGCTGCTAACAAAATTTTGTTGTATGATT > W3110S.gb/1742756‑1742889
|
| 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
