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 |
2,609,767 |
C→G |
35.7% |
L136L (CTG→CTC) |
nikD ← |
nickel transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,609,767 | 0 | C | G | 35.7%
| 45.9
/ 45.0
| 56 | L136L (CTG→CTC) | nikD | nickel transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (16/20); new base G (11/9); total (27/29) |
| Fisher's exact test for biased strand distribution p-value = 5.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAAGCGTAGC > minE/2609707‑2609829
|
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:468615/69‑1 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:225641/69‑1 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg > 1:94267/1‑69 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:1999453/69‑1 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:2304220/69‑1 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg > 1:2339526/1‑69 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg > 1:2355009/1‑69 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg > 1:2409328/1‑69 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:782109/69‑1 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg > 1:781389/1‑69 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:3429846/69‑1 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:127422/69‑1 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:1264568/69‑1 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg > 1:592859/1‑69 (MQ=255)
caGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg > 1:451537/1‑69 (MQ=255)
aGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAg < 1:804650/68‑1 (MQ=255)
gCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCgcggcg > 1:1385272/1‑69 (MQ=255)
gCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCgcggcg > 1:1749076/1‑69 (MQ=255)
aaTCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGtt > 1:17862/1‑69 (MQ=255)
atcatGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCAcgcg > 1:1056128/1‑56 (MQ=255)
atcatGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTcc > 1:2287920/1‑69 (MQ=255)
atcatGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTcc > 1:511671/1‑69 (MQ=255)
atcatGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTcc > 1:1832696/1‑69 (MQ=255)
atcatGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTcc > 1:600127/1‑69 (MQ=255)
atcatGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTcc > 1:2523096/1‑69 (MQ=255)
cgcTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAGCCCGCGCGCGGCGTTTTCCa > 1:3310202/1‑64 (MQ=255)
cgcTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAGCACGCGCGCGGCGTTTTCCAGcccc > 1:2293539/1‑69 (MQ=255)
cgcTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAGCACGCGCGCGGCGTTTTCCAGcccc > 1:2170482/1‑69 (MQ=255)
cgcTGCAACATGCCGCCGCTCATCTCGAACGGGTAGAGCTTCAGCACGCGCGCGGCGTTTTCCAGcccc > 1:2779066/1‑69 (MQ=255)
cATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTc < 1:516312/69‑1 (MQ=255)
cATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTc < 1:1150459/69‑1 (MQ=255)
cATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTc < 1:1309723/69‑1 (MQ=255)
cATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTc < 1:634025/69‑1 (MQ=255)
cATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTc < 1:1489144/69‑1 (MQ=255)
cATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTc < 1:2551121/69‑1 (MQ=255)
cATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTc < 1:247368/69‑1 (MQ=255)
cATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTc < 1:2382911/69‑1 (MQ=255)
cATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt < 1:2739045/69‑1 (MQ=255)
cATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt < 1:2833895/69‑1 (MQ=255)
cATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt < 1:1378773/69‑1 (MQ=255)
cATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt < 1:1577483/69‑1 (MQ=255)
cATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt < 1:1612181/69‑1 (MQ=255)
cATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt < 1:1243921/69‑1 (MQ=255)
cATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt < 1:1958856/69‑1 (MQ=255)
ctcGAACGGGTACAGCTTCAACACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt > 1:944853/1‑66 (MQ=255)
tcGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAag > 1:918578/1‑68 (MQ=255)
tcGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAag > 1:1100577/1‑68 (MQ=255)
tcGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAag > 1:2808952/1‑68 (MQ=255)
tcGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAag > 1:2372009/1‑68 (MQ=255)
tcGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAag > 1:2035411/1‑68 (MQ=255)
tcGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAag > 1:199757/1‑68 (MQ=255)
aCGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAagcgt < 1:3401189/67‑1 (MQ=255)
cGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAagcgtagc < 1:347131/69‑1 (MQ=255)
cGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAagcgtagc < 1:335903/69‑1 (MQ=255)
cGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAagcgtagc < 1:2535770/69‑1 (MQ=255)
cGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAagcgtagc < 1:94820/69‑1 (MQ=255)
cAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGt < 1:2954426/54‑1 (MQ=255)
|
CAGCACCGCCATCGCAATCATCATGCGCTGCAACATGCCGCCGCTCATCTCGAACGGGTACAGCTTCAGCACGCGCGCGGCGTTTTCCAGCCCCACCGCTTCTATGGCAGCGGTAAGCGTAGC > minE/2609707‑2609829
|
| 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
