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 |
2,872,269 |
T→C |
77.1% |
S174P (TCA→CCA) |
ulaF → |
L‑ribulose 5‑phosphate 4‑epimerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,872,269 | 0 | T | C | 77.1%
| 102.7
/ 22.4
| 78 | S174P (TCA→CCA) | ulaF | L‑ribulose 5‑phosphate 4‑epimerase |
| Reads supporting (aligned to +/- strand): ref base T (11/7); new base C (30/30); total (41/37) |
| Fisher's exact test for biased strand distribution p-value = 4.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.36e-01 |
GCCGAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGAAAA > minE/2872201‑2872315
|
gCCGAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCt > 1:2783859/1‑69 (MQ=255)
gCCGAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCt > 1:1600677/1‑69 (MQ=255)
gAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCAc < 1:944996/69‑1 (MQ=255)
gAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCAc < 1:2435873/69‑1 (MQ=255)
gAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCAc < 1:2620115/69‑1 (MQ=255)
gAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCAc < 1:2898504/69‑1 (MQ=255)
gAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCAc < 1:549244/69‑1 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGATAGATGCCCACGACGCGGTGCATAACGCggtg > 1:74650/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:506326/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:340682/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:3059951/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:3034215/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:520097/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:2885186/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:681360/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:2533167/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:984315/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:2370091/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:2156777/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:1881764/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:1614997/1‑68 (MQ=255)
ttGTGGTGTATCAGCACGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCggtg > 1:1708479/1‑68 (MQ=255)
tgtgGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCggtggt < 1:3303790/69‑1 (MQ=255)
gtggtgTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCggtgg > 1:912962/1‑67 (MQ=255)
gtggtgTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGgtggtg > 1:2115442/1‑69 (MQ=255)
tCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGgaaga > 1:2077280/1‑69 (MQ=255)
tCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGgaaga > 1:3089497/1‑69 (MQ=255)
tCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGgaaga > 1:2184702/1‑69 (MQ=255)
tCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGgaaga > 1:2710180/1‑69 (MQ=255)
tCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGgaaga > 1:1289280/1‑69 (MQ=255)
aGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGga > 1:1180736/1‑64 (MQ=255)
aGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGGaagaag > 1:2089168/1‑69 (MQ=255)
aGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGGaagaag > 1:540956/1‑69 (MQ=255)
aGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGGaagaag > 1:2721466/1‑69 (MQ=255)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:554411/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:357796/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:3020342/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:1790361/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:2956298/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:1838338/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:3186756/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:2177427/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:1326801/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:1647915/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:3197161/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:2061916/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:1401308/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:745873/1‑37 (MQ=25)
aCGGACCGTTCGCCTGGGGGAAAGATGCCCACGACGc > 1:2468780/1‑37 (MQ=25)
gCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaa < 1:902955/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGGCGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:3265477/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:1327710/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:2049078/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:383387/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:1379368/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:747051/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:830459/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:627055/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:77709/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:1258623/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:328907/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:2217703/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:2252857/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:1782504/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:2375466/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:1758086/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:244404/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:172296/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:2601116/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:26156/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:2735877/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:279014/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:1633490/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:2976774/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:1476252/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:1404523/69‑1 (MQ=255)
cGTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:3397796/69‑1 (MQ=255)
gTTCGCCTGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:284224/68‑1 (MQ=255)
tGGGGGAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGaaaa < 1:114505/61‑1 (MQ=255)
gggtgAAAGATGCCCACGACGCGGTGCATAACGCGGTGGTGATGTAAGAAGTGGCGaaaa < 1:2198662/60‑1 (MQ=255)
|
GCCGAGCCGCTGCATACGCCGGGAATTGTGGTGTATCAGCACGGGCCGTTCGCCTGGGGGAAAGATGCTCACGATGCGGTGCATAACGCGGTGGTGATGGAAGAAGTGGCGAAAA > minE/2872201‑2872315
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
