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 |
811,442 |
C→G |
70.4% |
V526L (GTG→CTG) |
ychM ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 811,442 | 0 | C | G | 70.4%
| 83.2
/ 45.9
| 71 | V526L (GTG→CTG) | ychM | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base C (17/4); new base G (29/21); total (46/25) |
| Fisher's exact test for biased strand distribution p-value = 1.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.88e-01 |
GAACGCCAGGCGTCCCGGGATCGGTTGAATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGAC > minE/811374‑811507
|
gaaCGCCAGGCGTCCCGGGATCGGTTGAATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAc > 1:1930259/1‑69 (MQ=255)
gaaCGCCAGGCGTCCCGGGATCGGTTGAATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAc > 1:3081778/1‑69 (MQ=255)
gTCCCGGGATCGGTTGAATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACAcg > 1:2155075/1‑68 (MQ=255)
aTCGGTTGAATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTca > 1:962138/1‑69 (MQ=255)
aTCGGTTGAATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTca < 1:2601455/69‑1 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGt < 1:2404616/46‑1 (MQ=39)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCCCACGCGCAGTTCACATcct > 1:815582/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTca > 1:2841273/1‑63 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:515013/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:564105/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:1060685/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:3016964/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:249905/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:718547/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:3099434/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:733950/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:2288927/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:2253416/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:3153909/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:428529/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:215066/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:113520/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:2035798/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:1561838/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:1272455/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:1514455/1‑68 (MQ=255)
tGAATGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGAAGTTCACATcct > 1:3241280/1‑68 (MQ=255)
tGAATGACTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATcct > 1:439268/1‑68 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCTAGGTTGCACACGCGCAGTTCACATCCTTc < 1:130949/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:298004/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:2971945/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:2778946/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:273654/68‑1 (MQ=255)
aTGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:2627626/68‑1 (MQ=255)
tGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:907977/67‑1 (MQ=255)
tGCCTGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTc < 1:1388054/67‑1 (MQ=255)
gcgcGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGTGCAGa < 1:2292892/69‑1 (MQ=255)
gcgcGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGa < 1:1216256/69‑1 (MQ=255)
gcgcGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGa < 1:2396517/69‑1 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:878146/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:118726/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:850948/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:1670358/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:462102/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:3332086/1‑69 (MQ=255)
cgcgAGCCATAGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGAc > 1:2979344/1‑69 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:3198329/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2080926/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1416325/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2824585/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1439668/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2670040/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1478372/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1528543/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2312572/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1680999/69‑1 (MQ=255)
aGTGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:1970626/69‑1 (MQ=255)
tGCGCAGTGGCTGGAATTCCAGGTTGCACACGCGCAGTTCACATCCTTCGGGCAGACGCTTCACaaa < 1:2625741/67‑1 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:3341928/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:626793/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:2428617/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:2023617/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:1453585/1‑69 (MQ=255)
gcgcAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACg > 1:988150/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:3065935/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:2987467/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:2947900/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:2368259/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:1632060/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:870742/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:1517960/1‑69 (MQ=255)
tGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGaa > 1:1240633/1‑69 (MQ=255)
ccACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGac > 1:275480/1‑69 (MQ=255)
|
GAACGCCAGGCGTCCCGGGATCGGTTGAATGCCAGCGCGAGCCATAGTGCGCAGTGGCTGGAATTCCACGTTGCACACGCGCAGTTCACATCCCTCGGGCAGACGCTTCACAAAACGCTGGAACGCATCAAGAC > minE/811374‑811507
|
| 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
