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 |
811,467 |
C→T |
53.3% |
E517E (GAG→GAA) |
ychM ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 811,467 | 0 | C | T | 53.3%
| 4.7
/ 64.0
| 75 | E517E (GAG→GAA) | ychM | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base C (16/19); new base T (20/20); total (36/39) |
| Fisher's exact test for biased strand distribution p-value = 8.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.37e-01 |
ATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACGGCA > minE/811402‑811533
|
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCTAGGTTGCACACGCGCAGTTCACATCCTTc < 1:130949/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:273654/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:2778946/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:2627626/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:298004/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:2971945/68‑1 (MQ=255)
tGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:1388054/67‑1 (MQ=255)
tGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:907977/67‑1 (MQ=255)
gcgcGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGTGCAGa < 1:2292892/69‑1 (MQ=255)
gcgcGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGa < 1:2396517/69‑1 (MQ=255)
gcgcGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGa < 1:1216256/69‑1 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:2979344/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:3332086/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:462102/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:1670358/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:878146/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:118726/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:850948/1‑69 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2312572/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1680999/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2080926/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1970626/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2670040/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:3198329/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2824585/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1528543/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1478372/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1439668/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1416325/69‑1 (MQ=255)
tGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2625741/67‑1 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:626793/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:2023617/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:3341928/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:1453585/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:988150/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:2428617/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:3065935/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:2947900/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:2987467/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:2368259/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:870742/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:1632060/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:1517960/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:1240633/1‑69 (MQ=255)
ccACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGac > 1:275480/1‑69 (MQ=255)
cacaTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGaa > 1:1167063/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGaa > 1:1431058/1‑68 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGaa > 1:1304277/1‑68 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:3302431/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:3085344/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:3391917/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:568852/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:590008/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:2607443/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:1100804/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:1342960/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:2497084/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:2231422/1‑69 (MQ=255)
acaTCCTTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAAc > 1:1939847/1‑69 (MQ=255)
aTCCCTCGGGCATACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:2263242/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:1936524/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:1336876/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:1695049/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:1711469/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:861038/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:755112/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:685745/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:668307/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:3042525/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:448209/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:2017248/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:244107/69‑1 (MQ=255)
aTCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:3268727/69‑1 (MQ=255)
tCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:757192/68‑1 (MQ=255)
tCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACgg < 1:994051/68‑1 (MQ=255)
cccTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACGGc > 1:3163635/1‑68 (MQ=255)
cccTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACGGCa > 1:1929861/1‑69 (MQ=255)
cccTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACGGCa > 1:1883532/1‑69 (MQ=255)
cccTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACGGCa > 1:1799793/1‑69 (MQ=255)
cccTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACGGCa > 1:3356275/1‑69 (MQ=255)
cccTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACGGCa > 1:3183650/1‑69 (MQ=255)
|
ATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGACCACCAGCATCAAGTACCGGAACGGCA > minE/811402‑811533
|
| 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
